GgaINT1001960 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:H9L2I7]
Coordinates
JH376378.1:12420-13242:+
Coord C1 exon
JH376378.1:12420-12717
Coord A exon
JH376378.1:12718-12936
Coord C2 exon
JH376378.1:12937-13242
Length
219 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGG
5' ss Score
7.47
3' ss Seq
CCTCTGTCCAGAATTCACAGGGC
3' ss Score
1.29
Exon sequences
Seq C1 exon
CTGGTCGGAGGGGACAGCCGCTGCTCAGGACGAGTGGAGATCAATGATGGGGATGGGTGGAAATCTGTCTGTGACTCACACTTTAGTGCCAAAGCTGCTGATGTGGTCTGCAGAGATCTTCAGTGTGGCAGAGCCCTGCCCGTCACCAGAGCAAGTCCCTCTGGAGAAGGGACCGGTCCCATCTGGGACAGAGAGCTGCAGTGTGTGGGGAATGAATCCACCCTCTCCTCCTGCCCCACGGGGACTCCTCAGGACCAGCCCTGCACCCAGACAAGCACTGCTGCCGTCAGCTGCACAC
Seq A exon
GTAAGGGCTCAGGGAAGGCTGTTGGATACTGAGTGTGTGCCAGGGACAGGGACAGGGCTGTGTCGAGTGTGAGGTCAGGAGGGTGATGTGGTATTCTGTAGCCCTAAGGCAGTGCTGAAGGAGGAGGCTTCATGTTGTCCCTTTGGCCTCTCCTCCATCTCCTGAGGGAACGAGAGCACAAATCACTCCCCTCCATCCTCCTCTGTCCAGAATTCACAG
Seq C2 exon
GGCTCAGGCTGGTGAATGGCAGCACGGCGTGCATGGGCAGGGTGGAAGTGGAGGTGCAGGGAACATGGGGCACCCTTTGTGCCTCCCGCTGGGACCTCTTGGACGCCCACGTTCTCTGCCATCACCTCGGCTGTGGGTTTGCGGTGTCCGTTCCTGAAGGAGGGCATTTTGGGAGAGGAACCGGCCCGGTCTGGAGTGACTCGTTCCATTGTGAGGGGACTGAGTCCAGCCTGGATCAGTGCCCGGTGACCGCCCTGGGGGCCTCTCCGTGCTCCCATGAGAACGATGCTGCTGTCATTTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013442:ENSGALT00000035907:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=98.0)
A:
NA
C2:
PF0053013=SRCR=WD(100=95.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATCCACCCTCTCCTCCTG
R:
CAGTCCCCTCACAATGGAACG
Band lengths:
308-527
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]