SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein O (Sel O)
| DESCRIPCIÓN | Homólogo con cisteína. 6(+):16269571...16278247. |
| SELENOPROFILES | Encontrado. Elección: blast. Elemento SECIS predicho (strand:+ positions:16288403-16288493) |
| SECISearch | Sin resultados. |
| COMENTARIOS | Elección: Genewise. Ni Exonerate ni Genewise predicen la selenocisteína, pero sí lo hace Selenoprofiles (detecta homólogo con cisteína). Observando el multiple-alignment, claramente es mejor la predicción de Exonerate, ejemplificando las carencias del SCORE de t_coffee. Viendo el mal alineamiento de Selenoprofiles, no podemos asegurar que se trate de la Sel O. |
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=93, Nseq=3, Len=682
SPP00000019_1.0 MAVYRAALGASLAAARLLPLGRCSPSPAPRSTLSGAAMEPAPRWLAGLRFDNRALRALPV
SPP00000019_1.0.6.exonerate ------------------------------------------------------------
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 EAPPPGPEGAPSAPRPVPGACFTRVQPTPLRQPRLVALSEPALALLGLGAPPAREAEAEA
SPP00000019_1.0.6.exonerate -----------SAPFPYPGTCFFSSR-NPLLFRSQVTIRSPHSLLF-------------S
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 AL-------------FFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAT
SPP00000019_1.0.6.exonerate RLHSPXXXXXXXXXXFVSGEKVLPGSVPLAHRYGGHQFGSWAGQLGDGRAHLVGVYTNRR
SPP00000019_1.0.6.genewise ---------------FVSGEKVLPGSVPLAHRYGGHQFGSWAGQLGDGRAHLVGVYTNRR
*.**: :***: * ** * *****.:******* * :* .
SPP00000019_1.0 GERWELQLKGAGPTPFSRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVV
SPP00000019_1.0.6.exonerate GERWELQLKRSGKTPYSQNGDGRAVLRSSVREFLCSEAMHYLGIPTSRAASLVVSDDDVW
SPP00000019_1.0.6.genewise GERWELQLKRSGKTPYSQNGDGRAVLRSSVREFLCSEAMHYLGIPTSRAASLVVSDDDVW
********* :* **:*::.*** *****:*********.:**:**:**.: *.*:. *
SPP00000019_1.0 RDVFYDGNPKYEQCTVVLRVASTFIRFGSFEIFKSADEHTGRAGPSVGRNDIRVQLLDYV
SPP00000019_1.0.6.exonerate RDQFYNGNIKKERGAVVLRLAKSWFRIGSLEILAHSEPHNPCPGPALAWVTCPVRLLDFI
SPP00000019_1.0.6.genewise RDQFYNGNIKKERGAVVLRLAKSWFRIGSLEILAHSGE-----------LDLLRRLLDFI
** **:** * *: :****:*.:::*:**:**: : :***::
SPP00000019_1.0 ISSFYPEIQAAHASDSVQRNAAFFREVTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTI
SPP00000019_1.0.6.exonerate IQEHFPSIVPNNSDRYLVSIFEFFSTVVSETANLIALWMSVGFAHGVCNTDNFSLLSITI
SPP00000019_1.0.6.genewise IQEHFPSIVPNNSDRY----LEFFSTVVSETANLIALWMSVGFAHGVCNTDNFSLLSITI
*...:*.* . ::. ** *. .**.::* * .***.*** ****:*:*.:**
SPP00000019_1.0 DYGPFGFLDRYDPDHVCNASDNTGRYAYSKQPEVCRWNLRKLAEALQPELPLELGEAILA
SPP00000019_1.0.6.exonerate DYGPFGFMDSYDPNFVPNTSDDEGRYKIGNQANVGLFNLNKLLQALKPLLDPRQKQLIL-
SPP00000019_1.0.6.genewise DYGPFGFMDSYDPNFVPNTSDDEGRYKIGNQANVGLFNLNKLLQALKPL-----------
*******:* ***:.* *:**: *** .:*.:* :**.** :**:*
SPP00000019_1.0 EEFDAEFQRHYLQKMRRKLGLVQVELEEDGALVSKLLETMHLTGADFTNTFYLLSSFPVE
SPP00000019_1.0.6.exonerate EEYGQTYYVRFTELFKRKLGLLG-DSEDDNYLIAFLLKLMEDTKADFTMTFRQLSEITAD
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 LESPGLAEFLARLMEQCASLEELRLAFRPQMDPRQLSMMLMLAQSNPQLFALMGTRAGIA
SPP00000019_1.0.6.exonerate QESEWVAMYLSRLDGDGASTTSLGNLCQCLITLSVKDFFLILSLNTPCVVPAYRCVTWAA
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 RELERVEQQSRLEQLSAAELQSRNQGHWADWLQAYRARLDKDLEGAGDAAAWQAEHVRVM
SPP00000019_1.0.6.exonerate SVMEERSFCLALCQQMFSHQQSRNININFYDLQEYSDNIRICFPAVW-QECKQTKHFREA
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 HANNPKYVLRNYIAQNAIEAAERGDFSEVRRVLKLLETPYHCEAGAATDAEATEADGADG
SPP00000019_1.0.6.exonerate AAVNPRYVLRNWMAESAVQKANLNDFSEV-------------------------------
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 RQRSYSSKPPLWAAELCVTUSS
SPP00000019_1.0.6.exonerate ---------------------K
SPP00000019_1.0.6.genewise ---------------------L
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=97, Nseq=2, Len=669
SPP00000019_1.0 MAVYRAALGASLAAARLLPLGRCSPSPAPRSTLSGAAMEPAPRWLAGLRFDNRALRALPV
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 EAPPPGPEGAPSAPRPVPGACFTRVQPTPLRQPRLVALSEPALALLGLGAPPAREAEAEA
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 ALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTATGERWELQLKGAGP
SPP00000019_1.0.6.genewise --FVSGEKVLPGSVPLAHRYGGHQFGSWAGQLGDGRAHLVGVYTNRRGERWELQLKRSGK
*.**: :***: * ** * *****.:******* * :* . ********* :*
SPP00000019_1.0 TPFSRQADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKYEQ
SPP00000019_1.0.6.genewise TPYSQNGDGRAVLRSSVREFLCSEAMHYLGIPTSRAASLVVSDDDVWRDQFYNGNIKKER
**:*::.*** *****:*********.:**:**:**.: *.*:. * ** **:** * *:
SPP00000019_1.0 CTVVLRVASTFIRFGSFEIFKSADEHTGRAGPSVGRNDIRVQLLDYVISSFYPEIQAAHA
SPP00000019_1.0.6.genewise GAVVLRLAKSWFRIGSLEILAHS-----------GELDLLRRLLDFIIQEHFPSIVPN--
:****:*.:::*:**:**: : *. *: :***::*...:*.* .
SPP00000019_1.0 SDSVQRNAAFFREVTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPFGFLDRYDP
SPP00000019_1.0.6.genewise --NSDRYLEFFSTVVSETANLIALWMSVGFAHGVCNTDNFSLLSITIDYGPFGFMDSYDP
. :* ** *. .**.::* * .***.*** ****:*:*.:*********:* ***
SPP00000019_1.0 DHVCNASDNTGRYAYSKQPEVCRWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQ
SPP00000019_1.0.6.genewise NFVPNTSDDEGRYKIGNQANVGLFNLNKLLQALKPL------------------------
:.* *:**: *** .:*.:* :**.** :**:*
SPP00000019_1.0 KMRRKLGLVQVELEEDGALVSKLLETMHLTGADFTNTFYLLSSFPVELESPGLAEFLARL
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 MEQCASLEELRLAFRPQMDPRQLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSRLE
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 QLSAAELQSRNQGHWADWLQAYRARLDKDLEGAGDAAAWQAEHVRVMHANNPKYVLRNYI
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 AQNAIEAAERGDFSEVRRVLKLLETPYHCEAGAATDAEATEADGADGRQRSYSSKPPLWA
SPP00000019_1.0.6.genewise ------------------------------------------------------------
SPP00000019_1.0 AELCVTUSS
SPP00000019_1.0.6.genewise --------L
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelO.11.cysteine
---------- ----------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (+) 6
-Program blast
-Query name BLAST_QUERY_MASTER
-Query range 65-530 length:530 coverage: 0.88
-Profile range 225-1108 length:1108 coverage: 0.8 sec_position: [1106]
-Average sequence identity with profile: 0.2548 (ignoring gaps: 0.535)
-State kept
------- alignment -------
Query LLGLDAEEFESPDFAAVFSGNALLPGSEPAAHCYCGHQ <---Intron---> FGVWAGQLGDGRAIYLG <---Intron---> EVETADGERWELQ
/| | |/ || || /|||| | || | ||| < 780bp > || |||||||||| /| < 112bp > |||||||
Target ILDLHISVKETSDFFQFVSGEKVLPGSVPLAHRYGGHQ FGSWAGQLGDGRAHLVG ------GERWELQ
atgccatgagatgttctgaggagtcgtgctgcatggcc tgatggccgggagctgg ------ggatgcc
ttatatctaaccattattggaattcgctctcagaggaa tgggcgatgaggcattg ------gaggata
tgtttatcaaattttgtcctgagatgttagctacattg tccgatgggcaaccgca ------tgggaag
Query LKGAGPTPYS <---Intron---> RMADGRAVLRSSIREFLCSEAMHHLGIPTTRA <---Intron---> LSLVGSDTPVVRDMFYDGNPKMEPGA
|| /| |||| < 100bp > | |||||||||/||||||||||/|||||/|| < 8446bp >
Target LKRSGKTPYS RNGDGRAVLRSSVREFLCSEAMHYLGIPTSRA --------------------------
tactgaactt aagggaggccttgcgtctaggactcgacaaag --------------------------
tagcgaccac gagaggcttgcctgattggactaatgtccggc --------------------------
ggcaagcacc gtttaatgtcttggatgttgtgtttataacat --------------------------
Query VVTRVAPSFIRFGSFEIFASRDEFRDDILRQLADYVIDRFYPEIRGAHSNENRYAAFFREVAERTARLVAEWQAVGFCH-----GVMNTDNMSILGLTID
|| | || | || || |||| |/| /|||
Target ----------------------------------------------------------------TANL--EWN-VTFCFPCLIVGVCNTDNFSLLSITID
----------------------------------------------------------------agac--gta-gatttcttagggtaagatatttaaag
----------------------------------------------------------------ccat--aga-tctgtcgtttgtgacaatgttctcta
----------------------------------------------------------------aata--ggt-tctttttatatgctatcctgacaaat
Query YGPFGFLDAFDP <---Intron---> DHICNHSDDQGRYAYANQPQVAYWNLARLAQALLPLI <---Intron---> PDEEEAEAALERYDTEFEA
||||||/|//|| < 1235bp > | / | |||/||| || | /|| /| ||| ||/ < 7067bp >
Target YGPFGFMDSYDP DFVPNTSDDEGRYKIGNQANVGLFNLNKLLQALKPLL -------------------
tgctgtagttgc gtgcaatggggataagacgaggctacaactcgcactt -------------------
agctgttacaac attcaccaaaggaatgaacatgttataattactactt -------------------
ttgtatgcctca tttacgtttaggtgaacgactggttgcggaaagatag -------------------
Query EYLARMRAKLGLAQAEEEDKALVDKLLDLMAATGADFTNTFRLLSDLSADGADPAEEAPLRDAFLDEERKKNRAAWDAWLQAYRARLAKEGESDAERVAR
Target ----------------------------------------------------------------------------------------------------
----------------------------------------------------------------------------------------------------
----------------------------------------------------------------------------------------------------
----------------------------------------------------------------------------------------------------
Query MNAVNPKYVLRNYLAQKAIDAAEQGDFSEV <---Intron---> QRLLKLLERPFDEQPGAEA--YAGRPPDWASELEVSUSS
||||/|||||//|/ |/ | ||||| < 622bp > | | //|/||| | || || ||| || |/|| ||
Target --AVNPRYVLRNWMAESAVQKANLNDFSEV QLLQQVLQRPFQRQQAAEKAGYALRPPAWARGLKVSCSS
--ggacatgcaataggtggcagacagttgg cccccgtccctcaccgggaggtgccccgtgagcagattt
--ctacgattgagtcacctaacataatcat attaattagctagaaccaacgactgcccgcggtatggcc
--ttttacgtgtggaaaaggatcgtttaga gcgggcggtccggggtagaactcgcgttgcgttagccgc
*
------- positions -------
Exon 1 16268363 16268476
Exon 2 16269257 16269307
Exon 3 16269420 16269470
Exon 4 16269571 16269666
Exon 5 16278113 16278247
Exon 6 16279483 16279593
Exon 7 16286661 16286744
Exon 8 16287367 16287483
--------- SECIS ---------
>SelO.11.cysteine.esecis:loosest.1 chromosome:6 strand:+ positions:16288403-16288493 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:None distance_from_cds:919
GUGCUCUUCU GCAGCAG CUGGAAUGAGCAU UUGAG GCAGCACUGC CC CAGCUAAGA GCAGUGGGC UGAC GAGAG CUCCUGU AGGAGCCCUG
(((((((((( ((....) ).)))).)))))) .(((( ((..(((((( .. ......... )))))).)) )))) .((.( ((((... .))))).)).
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TGA
*
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