SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein P (Sel P)
| DESCRIPCIÓN | Selenoproteína. 10(-):21875037...21874369. |
| SECISearch | Un elemento predicho en la cadena antisense. 10:subseq(21865037,10000):[8744,8647] |
| SELENOPROFILES | Encontrada. Elección: Genewise.Predicción elemento SECIS (strand:- positions:21873681-21873782) |
| COMENTARIOS | Elección: Genewise. Sólo se predice parte de la proteína respecto sus homólogos, con la presencia de una única selenocisteína (Sel P en Homo sapiens y Pan troglodytes presenta hasta 10. Posible exonización en estas especies). |
1. ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
2. BEST PAIRWISE ALIGNMENT
3. RESULTADOS DEL SECISearch
4. RESULTADOS DEL Selenoprofiles
ALINEAMIENTO MÚLTIPLE DE TODOS LOS HOMÓLOGOS DE SELENODB
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=95, Nseq=6, Len=385
SPP00000020_1.0 MWRSLGLALALCLLPSGGTE-SQDQSSLCKQPPAWSIRDQDPMLNSNGSVTVVALLQASU
SPP00000020_1.0.10.exonerate ----LLLALASCLGLATASEGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASU
SPP00000020_1.0.10.genewise ------LALASCLGLATASEGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASU
SPP00000074_1.0 MWRSLGLALALCLLPSGGTE-SQDQSSLCKQPPAWSIRDQDPMLNSSGSVTVVALLQASU
SPP00000074_1.0.10.exonerate ----LLLALASCLGLATASEGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASU
SPP00000074_1.0.10.genewise ------LALASCLGLATASEGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASU
**** ** : .:* : : * **::.*** *....** .: *.*******:**
SPP00000020_1.0 YLCILQASKLEDLRVKLKKEGYSNISYIVVNHQGISSRLKYTHLKNKVSEHIPVYQQEEN
SPP00000020_1.0.10.exonerate HFCLQQARSLGALRERLGQQGVSDVRYMIINEQAPLSRAMFGELQRHAPPGVPVLQQQPH
SPP00000020_1.0.10.genewise HFCLQQARSLGALRERLGQQGVSDVRYMIINEQAPLSRAMFGELQRHAPPGVPVLQQQPH
SPP00000074_1.0 YLCILQASK-RSCRVKLKKEGYFHISYIVVNHQGISSRLKYTHLKNKVSEHIPVYQQEEN
SPP00000074_1.0.10.exonerate HFCLQQARSLGALRERLGQQGVSDVRYMIINEQAPLSRAMFGELQRHAPPGVPVLQQQPH
SPP00000074_1.0.10.genewise HFCLQQARSLGALRERLGQQGVSDVRYMIINEQAPLSRAMFGELQRHAPPGVPVLQQQPH
::*: ** . * :* ::* .: *:::*.*. ** : .*:.:.. :** **: :
SPP00000020_1.0 QTDVWTLLNGSKDDFLIYDRCGRLVYHLGLPFSFLTFPYVEEAIKIAYCEKKCGNCSLTT
SPP00000020_1.0.10.exonerate EPDVWQLLGGDKDDFLVYDRCGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGNCSLYT
SPP00000020_1.0.10.genewise EPDVWQLLGGDKDDFLVYDRCGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGNCSLYT
SPP00000074_1.0 QTDVWTLLNGSKDDFLIYDRCGRLVYHLGLPFSFLTFPYVEEAIKIAYCEKKCGNCSLTT
SPP00000074_1.0.10.exonerate EPDVWQLLGGDKDDFLVYDRCGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGNCSLYT
SPP00000074_1.0.10.genewise EPDVWQLLGGDKDDFLVYDRCGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGNCSLY-
:.*** **.*.*****:*******.:*: **:*** :****.**:::: :. ******
SPP00000020_1.0 LKDEDFCKRVSLATVDKTVETPSPHYHHEHHHNHGHQHLGSSELSENQQPGAPNAPTHPA
SPP00000020_1.0.10.exonerate NSTQEVPTTLTPLPKQEEKESETPA-HHQPNHLHPHHHAVGS-------------RTAPE
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000074_1.0 LKDEDFCKRVSLATVDKTVETPSPHYHHEHHHNHGHQHLGSSELSENQQPGAPNAPTHPA
SPP00000074_1.0.10.exonerate NSTQEVPTTLTPLPKQEEKESETPA-HHQPNHLHPHHHAVGS-------------RTAPE
SPP00000074_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 PPGLH---HHHKHKGQHRQGHPENRDMPASEDLQDLQKKLCRKRCINQLLCKLPTDSELA
SPP00000020_1.0.10.exonerate PSGDHRPAHTHHHHGAHGQLHPKGQT-PEG------------------------------
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000074_1.0 PPGLH---HHHKHKGQHRQGHPENQDMPGSEDLQDLQKKLCRKRCINQLLCKLPKDSELA
SPP00000074_1.0.10.exonerate PSGDHRPAHTHHHHGAHGQLHPKGQT-PEGHDPSDI------------------------
SPP00000074_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 PRSUCCHCRHLIFEKTGSAITUQCKENLPSLCSUQGLRAEENITESCQURLPPAAUQISQ
SPP00000020_1.0.10.exonerate ------------------------------------------------------------
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000074_1.0 PRSCCCHCRHLIFEKTGSAITUQCKENLPSLCSUQGLRAEENITESCQURLPPAAUQISQ
SPP00000074_1.0.10.exonerate ------------------------------------------------------------
SPP00000074_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 QLIPTEASASURUKNQAKKUEUPSN
SPP00000020_1.0.10.exonerate ------------------------H
SPP00000020_1.0.10.genewise -------------------------
SPP00000074_1.0 QLIPTEASTSUCUKNQAKKUEUPSN
SPP00000074_1.0.10.exonerate ----------------------PGS
SPP00000074_1.0.10.genewise ------------------------T
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=95, Nseq=2, Len=382
SPP00000020_1.0 MWRSLGLALALCLLPSGGTE-SQDQSSLCKQPPAWSIRDQDPMLNSNGSVTVVALLQASU
SPP00000020_1.0.10.genewise ------LALASCLGLATASEGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASU
**** ** : .:* : : * **::.*** *....** .: *.*******:**
SPP00000020_1.0 YLCILQASKLEDLRVKLKKEGYSNISYIVVNHQGISSRLKYTHLKNKVSEHIPVYQQEEN
SPP00000020_1.0.10.genewise HFCLQQARSLGALRERLGQQGVSDVRYMIINEQAPLSRAMFGELQRHAPPGVPVLQQQPH
::*: ** .* ** :* ::* *:: *:::*.*. ** : .*:.:.. :** **: :
SPP00000020_1.0 QTDVWTLLNGSKDDFLIYDRCGRLVYHLGLPFSFLTFPYVEEAIKIAYCEKKCGNCSLTT
SPP00000020_1.0.10.genewise EPDVWQLLGGDKDDFLVYDRCGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGNCSLY-
:.*** **.*.*****:*******.:*: **:*** :****.**:::: :. ******
SPP00000020_1.0 LKDEDFCKRVSLATVDKTVETPSPHYHHEHHHNHGHQHLGSSELSENQQPGAPNAPTHPA
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 PPGLHHHHKHKGQHRQGHPENRDMPASEDLQDLQKKLCRKRCINQLLCKLPTDSELAPRS
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 UCCHCRHLIFEKTGSAITUQCKENLPSLCSUQGLRAEENITESCQURLPPAAUQISQQLI
SPP00000020_1.0.10.genewise ------------------------------------------------------------
SPP00000020_1.0 PTEASASRUKNQAKKUEUPSN
SPP00000020_1.0.10.genewise ---------------------T
.
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>10:subseq(21865037,10000):[8744,8647] [8647 - 8744] (SECIS on complementary strand) - Free Energy: -33.46 UCUUCCUCUGCUGCUGCCUCUCUGUGCUCAAUGAUGCCCGUGGUGCAAACCAGGACCUCCUCGGUCACCACAGGCUGACACCUCACGGAGCAGCGGGG
_[8744,8647].png)
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelP.5.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (-) 10
-Program genewise
-Query name SelPb_Takifugu manually curated from dbTeu and selenoprofiles. uncomplete
-Query range 5-181 length:227 coverage: 0.78
-Profile range 245-446 length:693 coverage: 0.29 sec_positions: [309, 548, 569, 571, 572, 576, 580, 582, 587,
589, 603, 605, 607, 625, 626, 636, 638, 654, 655, 656, 657, 663, 665, 667, 679, 680, 681, 682, 688, 690]
-Average sequence identity with profile: 0.4174 (ignoring gaps: 0.4459)
-State kept
------- alignment -------
Query ATLIGLLWASHVQGFNHTTRICKPAPHWEINGEAPMQRLLGRVAVVALLKATUHFCLVQASR <---Intron---> IGGLRKKLIQSNMTEVSYMIVN
|/ /|| || /| / / /|/ || | ||| /||/ |/| |||||||/||||| || < 79bp > /| ||//| | ///| |||/|
Target ASCLGLATAS--EGATNGSWLCREAPAWRINGSSPMEGTAGQVTVVALLKASUHFCLQQARS LGALRERLGQQGVSDVRYMIIN
gttcgcgagt--gggaagatctcggcgtcaagtacaggaggcgagggccagatcttcccgca cggccgctgccggaggctaaaa
ccgtgtcccc--agccagggtggacccggtagcgctagccgatcttcttacggatgtaacgg tgctgagtgaagtgatgattta
cccgggcgct--ggcccccggccgcggggccccccgaggaggggggcgggtcacccgggtc ccgcggggggggtgctcctgccc
*
Query EQDPHSRALFWELERRAPPDVPVYQQSAFQSDVWETLDGDKDDFLIYDR <---Intron---> CGQLTFHVGLPYSFLNYVYVEAAIRATYQGNIC-N
|| | |||/| ||/| ||| ||| || / |||/ | |||||||/||| < 125bp > ||/| ||/ ||||||/ |||/||| |// / | |
Target EQAPLSRAMFGELQRHAPPGVPVLQQQPHEPDVWQLLGGDKDDFLVYDR CGRLAFHIQLPYSFLHLPYVESAIRFTHRKDFCGN
gcgcctcgatggccccgccggcgccccccgcggtcccgggaggtcgtgc tgccgtcaccctatcccctggtgactaccagttga
aacctcgcttgatagacccgtcttaaacaacatgattggaaaatttaag gggtctatatcagttatcatacctgtcagaatgga
ggcggcccgcggggctcagctcccgggacgctgggtggtcacccaccc ccccgccccggccccgcgcccgccccccccgcctgc
Query CSANSTSLHD
|| / | /
Target CSLYTNSTQE
ttctaaaacg
gctacagcaa
ccccccccgg
------- positions -------
Exon 1 21874907 21875085
Exon 2 21874615 21874827
Exon 3 21874354 21874489
--------- SECIS ---------
>SelP.5.selenocysteine.esecis:str.1 chromosome:10 strand:- positions:21873681-21873782 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:946 distance_from_cds:571
UUCUUCCUCU GCUGCUGC CUCUCUGUGCUCA AUGAU GCCCGUGGUGC AA ACCAGGACCUCCUCGG UCACCACAGGC UGAC ACCU CACGGAGC AGCGGGGCAG
........(( (((.(((( ..(((((((.... .(((( (((.((((((. .. ((((((....))).)) ))))))).))) )))) .... ))))))). .)))))))))
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
GTACGGGGCTGCAGGGGCTGTGGGTTGGGCTCTGCATCATGTGGCTTCGTGCTGGGACCGTGA
V R G C R G C G L G S A S C G F V L G P *
......................................................................................................................................................................................................................................................