SELENOPROTEÍNAS DE Meleagris gallopavo
PROTEIN REPORT FOR Selenoprotein H (Sel H)
| DESCRIPCIÓN | Selenoproteína. 5(+):17039443...17039538. |
| SECISearch | Un elemento predicho en la cadena sense (5:subseq(17039538,10000):[48,149]) |
| SELENOPROFILES | Encontrada. Elección: blast. Elemento SECIs predicho (strand:+ positions:17039586-17039687) |
| COMENTARIOS | Elección: Genewise. Escoge la predicción del Genewise que no encuentra la selenocisteína cuando el Exonerate sí la encuentra, ejemplificando que el SCORE de t_coffee no es una medida suficiente para evaluar el mejor alineamiento. Los resultados de Selenoprofiles y SECISearch apoyan la predicción de la presencia de la Sel H en el cromosoma 5. |
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=94, Nseq=6, Len=129
SPP00000014_1.0 MAPRGRKRK-AEAAVVAVAEKREKLANGGEGMEEATVVIEH------CTSURVYGRNAAA
SPP00000014_1.0.5.exonerate VPPPGRRRRRHGSAAIAT-EVKQAMAGG------AAGMQEQXXXXXXSRSURVYGRNAAA
SPP00000014_1.0.5.genewise ---------------------------------------------------RVYGRNAAA
SPP00000110_1.0 MAPHGRKRK-AGAAPMETVDKREKLAEG------ATVVIEH------CTSURVYGRHAAA
SPP00000110_1.0.5.exonerate --------K-GGAAGLEA-EEKGSGWEQ------STYVL-QX----XSRSURVYGRNAAA
SPP00000110_1.0.5.genewise ---------------------------------------------------RVYGRNAAA
*****:***
SPP00000014_1.0 LSQALRLEAPELPVKVNPTKPRRGSFEVTLLRPDGSSAELWTGIKKGPPRKLKFPEPQEV
SPP00000014_1.0.5.exonerate LSEALRGAVAALAVEINPRQPRRNSFEVSLVKEDGSTVQLWSGIGKGPPRKLKFPEPAVV
SPP00000014_1.0.5.genewise LSEALRGAVAALAVEINPRQPRRNSFEVSLVKEDGSTVQLWSGIGKGPPRKLKFPEPAVV
SPP00000110_1.0 LSQALQLEAPELPVQVNPSKPRRGSFEVTLLRSDNSRVELWTGIKKGPPRKLKFPEPQEV
SPP00000110_1.0.5.exonerate LSEALRGAVAALAVEINPRQPRRNSFEVSLVKEDGSTVQLWSGIGKGPPRKLKFPEPAVV
SPP00000110_1.0.5.genewise LSEALRGAVAALAVEINPRQPRRNSFEVSLVKEDGSTVQLWSGIGKGPPRKLKFPEPAVV
**:**: .. *.*::** :***.****:*:: *.* .:**:** ************ *
SPP00000014_1.0 VEELKKYLS
SPP00000014_1.0.5.exonerate VEALRNSLA
SPP00000014_1.0.5.genewise VEALRNSLA
SPP00000110_1.0 VEELKKYLS
SPP00000110_1.0.5.exonerate VEALRNSLA
SPP00000110_1.0.5.genewise VEALRNSLA
** *:: *:
......................................................................................................................................................................................................................................................
BEST PAIRWISE ALIGNMENT
CLUSTAL FORMAT for T-COFFEE Version_7.54, SCORE=100, Nseq=2, Len=116
SPP00000110_1.0 MAPHGRKRKAGAAPMETVDKREKLAEGATVVIEHCTSURVYGRHAAALSQALQLEAPELP
SPP00000110_1.0.5.genewise --------------------------------------RVYGRNAAALSEALRGAVAALA
*****:*****:**: .. *.
SPP00000110_1.0 VQVNPSKPRRGSFEVTLLRSDNSRVELWTGIKKGPPRKLKFPEPQEVVEELKKYLS
SPP00000110_1.0.5.genewise VEINPRQPRRNSFEVSLVKEDGSTVQLWSGIGKGPPRKLKFPEPAVVVEALRNSLA
*::** :***.****:*::.*.* *:**:** ************ *** *:: *:
......................................................................................................................................................................................................................................................
RESULTADOS DEL SECISearch
>5:subseq(17039538,10000):[48,149] [48 - 149] - Free Energy: -43.30 GGGAGCGGCCUCACGGAGCGAGCGCCCAUGAAGAGGCGGCACCAAGGGGGGGCACCGCCCCCAGUAUCGCCUCCGACCUCGCAGCUCCUCCGCGGAAAUGCG
_[48,149].png)
......................................................................................................................................................................................................................................................
RESULTADOS DEL Selenoprofiles
Output_id: SelH.1.selenocysteine
---------- ---------------------
-Species Meleagris gallopavo -Taxid 9103
-Target /homes/users/U63748/gallopavo.fa
-Chromosome (+) 5
-Program blast
-Query name BLAST_QUERY_MASTER
-Query range 34-119 length:123 coverage: 0.7
-Profile range 183-273 length:332 coverage: 0.27 sec_position: [186]
-Average sequence identity with profile: 0.3329 (ignoring gaps: 0.3612)
-State kept
------- alignment -------
Query CTEUPIFGTKAEECGTFLQQRIPEREFQLVINKNPQKPRRGAFEIGLSQNARTSV <---Intron---> HELWSGLKKGPPRKDKFPEYEELVEDVKK
| //| | |/ / | / ||//||| /||/ | / /| < 73bp > /||||/ |||||| |||| /|| //
Target SRSURVYGRNAAALSEALRGAVA----ALAVEINPRQPRRNSFEVSLVKEDGSSE VQLWSGIGKGPPRKLKFPEPAVVVEALRN
acatcgtgcagggcaggccgggg----gcgggaacccccaaatggtcgagggaag gcctagagagcccacatcgcggggggcca
gggggtaggaccctgactggctc----ctctatacgacggagtatcttaaaggga tatgggtgagccgatatcacctttactga
ctcacgtgtcggggcgcgcgcgc----cgcagccgggccgcccggcggaaccctg ggggcccggggccgggccgcgcgggtggc
*
Query AL
/|
Target SL
ac
gt
cg
------- positions -------
Exon 1 17039217 17039369
Exon 2 17039443 17039535
--------- SECIS ---------
>SelH.1.selenocysteine.esecis:str.1 chromosome:5 strand:+ positions:17039586-17039687 species:"Meleagris gallopavo"
target:/homes/users/U63748/gallopavo.fa distance_from_sec_uga:284 distance_from_cds:50
GGGAGCGGCC UCACGGAG CGAGCGCCC AUGAA GAGGCGGCACC AA GGGGGGGCACCGCCCCC AGUAUCGCCUC CGAC CUCGCAG CUCCUCCG CGGAAAUGCG
(((.....)) )...(((( (..(((... .(((( (((((((.((. .. ..((((((...)))))) .)).))))))) )))) ..))).) ))))..(( ((....))))
--------- 3' seq --------
Total sequence length available downstream >= 3000
Sequence until first stop codon:
GCCTAG
A *
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