GgaINT0109138 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1BQW6]
Coordinates
chr1:12549067-12550533:-
Coord C1 exon
chr1:12550363-12550533
Coord A exon
chr1:12549964-12550362
Coord C2 exon
chr1:12549067-12549963
Length
399 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
AAAGCATGATTTCTTTCAAGCCT
3' ss Score
1.22
Exon sequences
Seq C1 exon
GAGATGGTATCGGATACGGACGCCCGCAGGTTAGAGGAATGTATTGCTGAAGAAGGCCGGCTGTTCAAGGAGCAGGAGAAATGCCGCAGTGAGTTATCCAGACTTGCACATCTGACGTGGCTCAAAGTTGAAGAGAAGGAACAGAAATCCAGGGAAGTTCAGAAAGTCCAG
Seq A exon
GTAAAAAAATCTCATATAATTGAAAGTCTGCTCTAAAGCAAAAGTTGCTACGTGAAGAAATAAAATCACTGATGAGAGGAACCTTATAGACTCTCACTTCCCACTGTACTTCAAAGATCTATCACAACTGTCCCTGTTCATTGCAGGGGAGTTGGACCAGATGACCTTTAAAGGTCCCTTCCAACTCTAAGGATTCTATGGTACTGTGGTTAGGCTGCGGTTGGACTTGATGATCTTTGAGGTCCTTTCCAACCTGAATTATTCTGTGATTCTATGATTAACACAGGAAGCTCATAATACTCTGCTAGTTTGGTGGCAATTTACAGTGCCGTACAACAGTGCACTAAAATATCACACTACAGTTGAAATAAGGTGTTTGAAAGCATGATTTCTTTCAAG
Seq C2 exon
CCTACAGAATAAAATGAACAATCATGGAAGAGGCAGAAATTCAGATAGCCTCAACTGAGATCCTTGGATGTACAAGAAGGTTGTTTTGTTTCGCAAATATATTGACATCAGAACTACTATTCACTCGAAGGAGAGACACCAATTCTTATTTTCCTGATACACTTCAATATATAAATCAGTCTATTAACTTGAAGGAAGAGGGAAAAATCCCCTGTTCTTCTGACTAAATAACAGGAACAAACTATTTACACTTCCATAATGTATTAAAATAAATTGTAAATCTGTATTAAAATAAATTGGACTGGCCACCATTATAGTATGTTGTGAATTATTGACTGTCAATAGAAATAGTCAAAGGAGCAGTTCAGGCTTTGCAAATTCAATAAAAATAAGCTCATAAACAGAACAAATCATTAAGAATATAATTTTGTTAACAAACACTCCTGCCCGGAACTGCAACCAGACATCCACCAGCTTTTCTAATGCCTATATTCTCCTCTTGATATCAGTAGGAGATGTGAGAAGGTTTGTCCATTGAATGTTAACGACACAAACTAGTAAGGACTGAACAGAACTGAAATCAGATGTGCAGAGCCCTAACGAAGTGTAAATGTGCCATGTCACTCAATCACCAGTGACTACTGAGAAGGTAGAGAAAGTAAAAAAAGAAAAGAAAAAAAATTCTTTAAAAAAGTGCATCATAAATTCAAGGTAAAACTCCAGCAGTGCATATGCACAACTACATCATGATGGAACTGTTTAATAATGTTTAATAGAAACAGTAGAACTACAGATAGCAGAGATCATTCATTTCAAGATGAGCATGAAATAAATTATCTACATTTTTAGCAGTCATCATAAGACTTGTATTGTATATACAGAGAGACTGTGTTTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008309:ENSGALT00000013526:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.158 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATTGCTGAAGAAGGCCGG
R:
GGGATTTTTCCCTCTTCCTTCAAGT
Band lengths:
343-742
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]