SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein O (SelO)
| DESCRIPCIÓN | Selenoproteína. 1(+):20711232...20716200. |
| SECISearch | Sin resultados. |
| SELENOPROFILES | Encontrada. Elemento SECIS predicho (strand:+ positions:20722192-20722284). |
| COMENTARIOS | Elección: Genewise. Ejemplo de los errores que presenta elegir el mejor alineamiento con el SCORE de t_coffee comparando el multiple-alignment y el best-alignment. Fijémonos que un homólogo con cisteína se alinea de forma incorrecta en el multiple-alignment. |
1. ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
2. BEST PAIRWISE ALIGNMENT
4. RESULTADOS DEL Selenoprofiles
ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=87, Nseq=6, Len=801
SPP00000019_1.0 MAVYRAALGASLAAARLLPLGRCSPSPAPRSTLSGAAMEPAPRWLAGLRFDNRALRA-LP
SPP00000019_1.0.1.exonerate ------------------------------------------------------------
SPP00000019_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 MGEKRTIIKALKNSAASHFIKKLTADTSLSSI-------------------QEAINVVQQ
SPP00000076_1.0.1.exonerate L-----------------------------------------------------------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 VEAPPPGPEGAPSAPRPV-PGACFTRVQPTPLRQPRLVALSEPALALLGLGAPPAREAEA
SPP00000019_1.0.1.exonerate ------------------------------------------------------------
SPP00000019_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 YNATDPVRLKLFHTPRMVSQGAHFAFCLPTKKPHYKPLLLSQNALDEFNLVQDQDLEKIL
SPP00000076_1.0.1.exonerate ------------------------------------------------------------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 EAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTATGERWE-LQLKG
SPP00000019_1.0.1.exonerate ------------------------------------------------------------
SPP00000019_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 SGEKVYYSDSIF----PYSTVYSGFQFGSFAAQLGDGRVVNLFDLKDKCSGQWQTFQLKG
SPP00000076_1.0.1.exonerate ---------------------------------------------ADTCIAQWIYSQAQP
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 AGPTPFSRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPK
SPP00000019_1.0.1.exonerate --PTEHTRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGTCVTSDSEVVRDIFYDGNPK
SPP00000019_1.0.1.genewise -------RQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGTCVTSDSEVVRDIFYDGNPK
SPP00000076_1.0 AGMTPFSRFADGKAVLRSSIREFIMSEALHSIGIPSTRAMQLTLLPGTKAQ------RRN
SPP00000076_1.0.1.exonerate MPAAPMKRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGTCVTSDSEVVRDIFYDGNPK
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 YEQCTVVLRVASTFIRFGSFEIFKSADEHTGRAGPSVGRNDIRVQLLDYVISS-------
SPP00000019_1.0.1.exonerate KERCTVVLRIAPTFIRFGSFEIFKPPDEYTGRKGPSVNRNDIRIQMLDYVIGT-------
SPP00000019_1.0.1.genewise KERCTVVLRIAPTFIRFGSFEIFKPPDEYTGRKGPSVNRNDIRIQMLDYVIGT-------
SPP00000076_1.0 QEPCAVVCRFAPSWIRLGNFNLFRWRHDLKGL-----------IQLSDYCIEELFAGGTQ
SPP00000076_1.0.1.exonerate KERCTVVLRIAPTFIRFGSFEIFKPPDEYTGRKGPS----DYKWECLQITLTL-------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 -------------FYPEIQAAHASDS----------------------------VQRNAA
SPP00000019_1.0.1.exonerate -------------FYPEIQEAHADNS----------------------------VQRNAA
SPP00000019_1.0.1.genewise -------------FYPEIQEAHADNS----------------------------VQRNAA
SPP00000076_1.0 FEGKPDFNIFKRDFFPDTE-TKIDEQV----------EKDETEVSTMTGDNISTLSKYDE
SPP00000076_1.0.1.exonerate -------------EFKCLKAAKQDNFPKEVTKPPACMQKKEFEVGETISQGVSPFLSCYQ
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 FFREVTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPFGFLDRYDPDHVCNASDN
SPP00000019_1.0.1.exonerate FFKEITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDRYDPEHICNGSDN
SPP00000019_1.0.1.genewise FFKEITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDRYDPEHICNGSDN
SPP00000076_1.0 FFRHVVSLNANTVAHWQAYGFANGVLNTDNTSIMGLTIDYGPFAFLDKFEPSFTPNHDDT
SPP00000076_1.0.1.exonerate FCAHITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDRYDPEHICNGSDN
SPP00000076_1.0.1.genewise ----ITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDRYDPEHICNGSDN
:. .*. **.**. **.:******* **:*********.*:*:::*.. * .*.
SPP00000019_1.0 TGRYAYSKQPEVCRWNLRKLAEALQPELPLELGEAIL-----------------------
SPP00000019_1.0.1.exonerate TGRYAYNKQPEICKWNLGKLAEALVPELPLEISELIL-----------------------
SPP00000019_1.0.1.genewise TGRYAYNKQPEICKWNLGKLAEALVPELPLEISELIL-----------------------
SPP00000076_1.0 AKRYSFANQPSIIWWNLQQFAKDLACLLGPEARDLELLLKGELNSVDDALEKTMIERVQK
SPP00000076_1.0.1.exonerate TGRYAYNKQPEICKWNLGKLAEALVPELPLEISELIL-----------------------
SPP00000076_1.0.1.genewise TGRYAYNKQPEICKWNLGKLAEA-------------------------------------
: **:: :**.: *** ::*:
SPP00000019_1.0 -----AEEFDAEFQRHYLQKMRRKLGLVQVELEED--------------------GALVS
SPP00000019_1.0.1.exonerate -----EEEYDAEFEKHYLQKMRKKLGLIQLELEED--------------------SKLVS
SPP00000019_1.0.1.genewise -----EEEYDAEFEKHYLQKMRKKLGLIQLELEED--------------------SKLVS
SPP00000076_1.0 LVELSANEYKYVFTTRYAQIMSQRLG-VDLDLEKCMSSTNLKDIEHAAEKAKEFCDVIVE
SPP00000076_1.0.1.exonerate -----EEEYDAEFEKHYLQKCLIK------------------------------------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 KLLETMHLTGADFTNTFYLLSSFPVEL---------------ESPGLAE-FLARLMEQCA
SPP00000019_1.0.1.exonerate ELLETMHLTGGDFTNIFYLLSSFSVDT---------------DPSRLED-FLEKLMSQCA
SPP00000019_1.0.1.genewise ELLETMHLTGGDFTNIFYLLSSFSVDT---------------DPSRLED-FLEKLMSQCA
SPP00000076_1.0 PLLDILQATKVDYNNFFIHLQNYKGPFFIKDKSDTATLFGAFDEEYLGMFFNSKQLQQMA
SPP00000076_1.0.1.exonerate ------------------------------------------------------------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 SLEELRLAFRPQMDPRQLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSRLEQLSAA
SPP00000019_1.0.1.exonerate SVEELRVAFKPQMDPRQLSMMLMLAQSNPQLFALIGTKANINKELERIEQFSKLQQLTAD
SPP00000019_1.0.1.genewise SVEELRVAFKPQMDPRQLSMMLMLAQSNPQLFALIGTKANINKELERIEQFSKLQQLTAD
SPP00000076_1.0 ETEEAFAAGEKV-------------------FDANGELRLLNEKLQEI------------
SPP00000076_1.0.1.exonerate ----------------------------------------------RVERTGSL------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 ELQSRNQGHWADWLQAYRARLDKDLEGAGDAAAWQAEHVRVMHANNPKYVLRNYIAQNAI
SPP00000019_1.0.1.exonerate DLLSRNKRHWTEWLEKYRVRLHKEVENISNVDAWNTERVKVMNSNNPKYILRNYIAQNAI
SPP00000019_1.0.1.genewise DLLSRNKRHWTEWLEKYRVRLHKEVENISNVDAWNTERVKVMNSNNPKYILRNYIAQNAI
SPP00000076_1.0 ----------RNWTQDYLTLVP-PTE--------TAARASLAKKANPLFVPRSWVLEEVV
SPP00000076_1.0.1.exonerate ------------------------------------------------------------
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 E------------AAERGDFSEVRRVLKLLETPYHCEAGAATDAEATEADGADGRQ----
SPP00000019_1.0.1.exonerate E------------AAENGDFSEVRNVLKLLENPFQETEDCTEIEEETTSTAAACAQATRS
SPP00000019_1.0.1.genewise E------------AAENGDFSEVRNVLKLLENPFQETEDCTEIEEETTSTAAACAQATRS
SPP00000076_1.0 DDLMYSQRDGLQDPSSELDTSALKKLYLMSVNPYDRTKWDVTLRPELETKWADLSHQD--
SPP00000076_1.0.1.exonerate -----------------------------------------------------------S
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000019_1.0 -RSYSSKPPLWAAELCVTUSS
SPP00000019_1.0.1.exonerate RLPYCSKPPLWASELCVTUSS
SPP00000019_1.0.1.genewise RLPYCSKPPLWASELCV---T
SPP00000076_1.0 ------DAKFMMQASC---SS
SPP00000076_1.0.1.exonerate KFPYG----------MV---Y
SPP00000076_1.0.1.genewise --------------------L
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=96, Nseq=2, Len=688
SPP00000076_1.0 MGEKRTIIKALKNSAASHFIKKLTADTSLSSIQEAINVVQQYNATDPVRLKLFHTPRMVS
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 QGAHFAFCLPTKKPHYKPLLLSQNALDEFNLVQDQDLEKILSGEKVYYSDSIFPYSTVYS
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 GFQFGSFAAQLGDGRVVNLFDLKDKCSGQWQTFQLKGAGMTPFSRFADGKAVLRSSIREF
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 IMSEALHSIGIPSTRAMQLTLLPGTKAQRRNQEPCAVVCRFAPSWIRLGNFNLFRWRHDL
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 KGLIQLSDYCIEELFAGGTQFEGKPDFNIFKRDFFPDTETKIDEQVEKDETEVSTMTGDN
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 ISTLSKYDEFFRHVVSLNANTVAHWQAYGFANGVLNTDNTSIMGLTIDYGPFAFLDKFEP
SPP00000076_1.0.1.genewise -------------ITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDRYDP
:.. .*. **.**. **.:******* **:*********.*:*:::*
SPP00000076_1.0 SFTPNHDDTAKRYSFANQPSIIWWNLQQFAKDLACLLGPEARDLELLLKGELNSVDDALE
SPP00000076_1.0.1.genewise EHICNGSDNTGRYAYNKQPEICKWNLGKLAEA----------------------------
.. * .*.: **:: :**.* *** ::*:
SPP00000076_1.0 KTMIERVQKLVELSANEYKYVFTTRYAQIMSQRLGVDLDLEKCMSSTNLKDIEHAAEKAK
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 EFCDVIVEPLLDILQATKVDYNNFFIHLQNYKGPFFIKDKSDTATLFGAFDEEYLGMFFN
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 SKQLQQMAETEEAFAAGEKVFDANGELRLLNEKLQEIRNWTQDYLTLVPPTETAARASLA
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 KKANPLFVPRSWVLEEVVDDLMYSQRDGLQDPSSELDTSALKKLYLMSVNPYDRTKWDVT
SPP00000076_1.0.1.genewise ------------------------------------------------------------
SPP00000076_1.0 LRPELETKWADLSHQDDAKFMMQASCSS
SPP00000076_1.0.1.genewise ---------------------------L
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelO.1.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (+) 1
-Program exonerate
-Query name gi|32880229|ref|NP_113642.1| Human SelO, introduced manually in the profile. The protein originally hit
in nr contained an additional stretch of aminoacids, which did not fit in the profile.
-Query range 183-669 length:669 coverage: 0.73
-Profile range 345-1108 length:1108 coverage: 0.69 sec_position: [1106]
-Average sequence identity with profile: 0.3869 (ignoring gaps: 0.4849)
-State kept
------- alignment -------
Query FSRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKYEQCTVVLRVASTFIR <---Intron---> FGSFEIFKSADEH
/ ||||||||||||||||||||||||||/|||||| ||||/| ||||/||||||| |/||||||/| |||| < 819bp > |||||||| ||/
Target WCRQADGRKVLRSSIREFLCSEAMFHLGIPTTRAGTCVTSDSEVVRDIFYDGNPKKERCTVVLRIAPTFIR FGSFEIFKPPDEY
ttacgggcagcataacgtctaggatccgacaaaggatgatgtgggcgattggacaagataggcaagcataa tgttgataccggt
gggacaggattgcgtgattggacttatgtcccgcgcgtccacattgattaagacaaaggctttgtcccttg tgctattaccaaa
gcgatttggcggacaggcgccgcgcctataaggtactgatcgatttcatttataaaagtattggagtata attttatcatttac
Query TGRAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDSVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYG
||| |||| |||||/|/||||| /|||||| ||| /|||||||||/| < 3631bp > /|/||||/|||||||||||||||||||||/|||||||
Target TGRKGPSVNRNDIRIQMLDYVIGTFYPEIQEAHADNSVQRNAAFFKE ITKRTARLVAEWQCVGFCHGVLNTDNMSIVGLTIDYG
agcagcagacagacacacgtgagattcgacggcggaagcaaggttag aaacagatgggtctggttcggcaagaaaaggtaagtg
cggagcgtagaatgtattaattgctacataacacaagtagaccttaa tcagccgttcagagtgtgagttacaatgttgtctaag
aacatcctcgcttaagggttgcctcctacggttaccctggtctccgg aaaggaagttgggttctcttggtatcgcataattccc
Query PFGFLDR <---Intron---> YDPDHVCNASDNTGRYAYSKQPEVCRWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQKMRRKLGLVQVELE
||||/|| < 402bp > |||/|/|| |||||||||/||||/|/||| |||||| ||||||/ | || ||/||||//|||||||/||||/|/|||
Target PFGFMDR YDPEHICNGSDNTGRYAYNKQPEICKWNLGKLAEALVPELPLEISELILEEEYDAEFEKHYLQKMRKKLGLIQLELE
ctgtaga tgcgcatagtgaagctgtaaccgatatacgacgggtgcgcctgaagcacgggtgggtgacttcaaaaacgcactgtg
ctgttag aacaatgagcaacggacaaaacatgagatgatcacttcatctatgatttaaaaacataaaataatgaatgttatata
ttatgc atctgccctcctcagcttccagagtcggtaggttacacaggcgaatgccgaaattaataattggggggaacatggaaa
Query EDGALVSKLLETMHLTG <---Intron---> ADFTNTFYLLSSFPVELESPGLAEFLARLMEQCASLEELRLAFRPQMDPR <---Intron---> Q
|| |||/||||||||| < 314bp > |||| ||||||| |/ / | /|| /|| ||||/||||/||/|||||| < 2895bp > |
Target EDSKLVSELLETMHLTG GDFTNIFYLLSSFSVDTDPSRLEDFLEKLMSQCASVEELRVAFKPQMDPR Q
ggaacgtgccgaaccag ggtaaatttcatttggagctacggttgacaactgtgggcaggtaccagca c
aagattcattactatc ggatcattattgctctacaccgtaattaattgagcctaatgtctacatacg a
attgggtagtacgtca taccattccggtacaattttaagatcaagtgtgttagaagattcatggta ag
Query LSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSRLEQLSAAELQSRNQGHWADWLQAYR <---Intron---> ARLDKDLEGAGDAAAWQAEHVRV
|||||||||||||||||/||/| | /||||/|| |/|/||/| /| |||/ || /||/ || < 514bp > || |//| / || | |/|
Target LSMMLMLAQSNPQLFALIGTKANINKELERIEQFSKLQQLTADDLLSRNKRHWTEWLEKYR VRLHKEVENISNVDAWNTERVKV
ctaacatgctaccctgcagaagaaaagtgcagcttaccctagggtcaaaaactagtcgata gctcagggaaaagggtaagcgag
tctttttcacacattcttgcacataaatagtaatcataatccaattggaagagcagtaaag tgtaaataatgatacgacagtat
gagggggtgtttggtactaaattataaaactaactagggaaattaccataacgtagggac actacaaaacctttttgttatggt
Query MHANNPKYVLRNYIAQNAIEAAERGDFSE <---Intron---> VRRVLKLLETPYHCEAGAATDAEATEADGADGRQRSYS-----SKPPLWAAELCV
|//|||||/|||||||||||||| ||||| < 620bp > || |||||| |/ | | / | | / | |||||||/||||
Target MNSNNPKYILRNYIAQNAIEAAENGDFSE VRNVLKLLENPFQETEDCTEIEEETTSTAAACAQATRSRLPYCSKPPLWASELCV
aataacatataatagcagaggggaggttg gaagtaccgactcgaggtagagggaatagggtgcgaaaaccttaaccctgtgctg
tacaacaattgaatcaactaccaagatca tgattattaactaacaagcataaacccccccgcaccgggtcaggacctgccatgt
gtcctaaccgatctcgtcaaatatgtcag gacagatgatacaatatcagaggaactaattttaacacgaatctatacgtagctt
Query TUSS
||||
Target TUSS
attt
cgcc
aatg
*
------- positions -------
Exon 1 20711226 20711437
Exon 2 20712257 20712437
Exon 3 20716069 20716199
Exon 4 20716602 20716882
Exon 5 20717197 20717347
Exon 6 20720243 20720428
Exon 7 20720943 20721099
Exon 8 20721720 20721896
--------- SECIS ---------
>SelO.1.selenocysteine.esecis:def.1 chromosome:1 strand:+ positions:20722192-20722284 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:301 distance_from_cds:295
GAACAUCCAA AUGGAGUU GUUAU GUGAA GACAAAAGUAUC AA GUCAGGAAUCUG AUCUGUUUUUGUC UGAU GUCUU AACUAAU AGUACUUCUA
.(((((((.. ..)))..) ))).. .(((( (((((((.((.. .. (((((....))) )).)).))))))) )))) ..... .(((... ))).......
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TAA
*
......................................................................................................................................................................................................................................................