SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein K (SelK)
| DESCRIPCIÓN | Selenoproteína. 14(-):7500561...7500475 |
| SECISearch | Elemento predicho en la cadena antisense. 14:subseq(7490561,10000):[6570,6471] |
| SELENOPROFILES | Encontrada. Elección: Genewise. Predicción elemento SECIS (strand:- positions:7497031-7497132) |
| COMENTARIOS | Elección: El alineamiento de las predicciones de Exonerate y Genewise obtuvieron el mismo score pero por defecto reportamos el alineamiento de Genewise. En nuestro multiple-alignment vemos que no se predice selenocisteína en el genoma de Meleagris gallopavo, pero sí la predice Selenoprofiles en la misma región. La posible razón es la ausencia de las selenoproteínas de Gallus gallus en SELENDOB. La presencia de elementos SECIS también apoya la presencia de esta Sel K funcional. |
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=98, Nseq=6, Len=95
SPP00000016_1.0 MVYISNGQVLDSRSQSPWRLSLITDFFWGIAEFVVLFFKTLLQQDVKKRRSYGNSSDSRY
SPP00000016_1.0.14.exonerate MVYISNGQVLDNRSRAPWSLSSITDFFWSIADFVVMFFQSIIQPDLR-RRGYTSSSYLGQ
SPP00000016_1.0.14.genewise MVYISNGQVLDNRSRAPWSLSSITDFFWSIADFVVMFFQSIIQPDLR-RRGYTSSSYLGQ
SPP00000112_1.0 MVYISNGQVLDSRNQSPWRVSFLTDFFWGIAEFVVFFFKTLLQQDVKKRRGYGSSSDSRY
SPP00000112_1.0.14.exonerate MVYISNGQVLDNRSRAPWSLSSITDFFWSIADFVVMFFQSIIQPDLR-RRGYTSSSYLGQ
SPP00000112_1.0.14.genewise MVYISNGQVLDNRSRAPWSLSSITDFFWSIADFVVMFFQSIIQPDLR-RRGYTSSSYLGQ
***********.*.::** :* :*****.**:***:**::::* *:: **.* .**
SPP00000016_1.0 DDGRGPPGNPPRRMGRINHLR-GPSPPPMAGGUGR
SPP00000016_1.0.14.exonerate TDGRGPPGNPRRRMGRINHWGGGPSPPPMAG---G
SPP00000016_1.0.14.genewise TDGRGPPGNPRRRMGRINHWGGGPSPPPMAG---G
SPP00000112_1.0 DDGRGPPGNPPRRMGRISHLR-GPSPPPMAGGUGR
SPP00000112_1.0.14.exonerate TDGRGPPGNPRRRMGRINHWGGGPSPPPMAG---G
SPP00000112_1.0.14.genewise TDGRGPPGNPRRRMGRINHWGGGPSPPPMAG---G
********* ******.* *********
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=96, Nseq=2, Len=95
SPP00000112_1.0 MVYISNGQVLDSRNQSPWRVSFLTDFFWGIAEFVVFFFKTLLQQDVKKRRGYGSSSDSRY
SPP00000112_1.0.14.genewise MVYISNGQVLDNRSRAPWSLSSITDFFWSIADFVVMFFQSIIQPDLR-RRGYTSSSYLGQ
***********.*.::** :* :*****.**:***:**::::* *:: **** ***
SPP00000112_1.0 DDGRGPPGNPPRRMGRISHLR-GPSPPPMAGGUGR
SPP00000112_1.0.14.genewise TDGRGPPGNPRRRMGRINHWGGGPSPPPMAG---G
********* ******.* *********
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>14:subseq(7490561,10000):[6570,6471] [6471 - 6570] (SECIS on complementary strand) - Free Energy: -29.60 UGAGAACUGUUCUGCAAUAUAAGCAGAUUAAUGAAGUUGUACUGGGAACUCCUUCAAGGAUCCAGUGCAACUGAAGUGCAGUGUUAUUAAAUACAUGUUU
_[6570,6471].png)
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RESULTADOS DEL Selenoprofiles
Output_id: SelK.2.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (-) 14
-Program genewise
-Query name gi|70906483|ref|NP_001020612.1| selenoprotein K [Gallus gallus]
-Query range 1-95 length:95 coverage: 1.0
-Profile range 1-152 length:153 coverage: 0.99 sec_position: [150]
-Average sequence identity with profile: 0.4452 (ignoring gaps: 0.4959)
-State kept
------- alignment -------
Query MVYISNG <---Intron---> QVLDNRSRAPWSLSAITDFFWSIADFVVMF <---Intron---> FQSIIQPDLRRRGYTSSSYLGQSDGRG <--
||||||| < 421bp > ||||||||||||||/||||||||||||||| < 1003bp > ||||||||||||||||||||||/|||| <
Target MVYISNG QVLDNRSRAPWSLSSITDFFWSIADFVVMF FQSIIQPDLRRRGYTSSSYLGQTDGRG
agtatag cgcgacacgctatttaagttttaggtggat tcaaaccgtaaagtatttttgcaggag
ttatca gattaagggccggtcctcattgctcattttt tagttacatggggaccccatgacaggg
ggcatc aatgtcgcgttgcgacaatccggaactatg ccgcttaatggaaccatcccaaattaa
Query -Intron---> PPGNPRRRMGRINHWGGGPSPPPMAGGGUGR
586bp > |||||||||||||||||||||||||||||||
Target PPGNPRRRMGRINHWGGGPSPPPMAGGGUGR
ccgacccaagaaactgggcacccaggggtga
ccgacgggtggtaaggggcgccctcgggggg
gtaattctagcaatcgtacctaaagtataaag
*
------- positions -------
Exon 1 7500982 7501000
Exon 2 7500470 7500560
Exon 3 7499386 7499466
Exon 4 7498706 7498799
--------- SECIS ---------
>SelK.2.selenocysteine.esecis:str.1 chromosome:14 strand:- positions:7497031-7497132 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:1579 distance_from_cds:1573
CUGAGAACUG UUCUGCAA UAUAAGCAGAUUA AUGAA GUUGUACUGGG AA CUCCUUCAAGGA UCCAGUGCAAC UGAA GUGCAGUG UUAUUAAA UACAUGUUUA
.......... .(((((.. .....)))))... .(((( ((((((((((( .. .((((...)))) ))))))))))) )))) ..(((((( ((....)) ))).)))...
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
TAA
*
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