GgaINT0078389 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NWX6]
Coordinates
chr3:44693036-44694267:+
Coord C1 exon
chr3:44693036-44693202
Coord A exon
chr3:44693203-44694118
Coord C2 exon
chr3:44694119-44694267
Length
916 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
CTTTTCCTCTTTCTTCACAGATT
3' ss Score
12.58
Exon sequences
Seq C1 exon
GGACCTGAGGCAGAATTATTGCAGAAACCCAGATGCTGATAGCCGCCCATGGTGCTATACCACTGACCCAAGTGTGAGATGGGAGTACTGCAACCTCAAGAGATGTAGTGACAATATACAGACAATTCTACCAAAACCTCCTCAGACAACTCTGGAACCAAATCCCG
Seq A exon
GTGAGAAGACTTGGTGTTTTCCCCAGGAACACTTGTAACAAGAAAGATGTTTTAGACGTAAAAATCATAGAGTTTAATGAGGATGAAAGACAGAATCCTAAACAATCTCAGAATTTAATATAATACCTTATCCACTCTCATCATTTTCTGAACCTTCCCGAAAAACTTTATACAACAGTTTTTGTATTTTATTTTAGATTATTTAGATTTAAAAAATAGGATATTTTTTATCTATTACATCTGGCAATACTGGAAGCACAAGGGAAAAAAAATGACTGATAGTAACCACACTCTGGTGGGAGTGCTATTAGCAATGACAGCAAATATAGAAGTGATGGCACTTTGCTGGCAAATGTTCTGAAAATATCTTTCCACATGCCATGCATTCACATTTTCTGAGCTCCATTTCCCACCAGAGGACAGCTGGCTTTTTGAACTGAGTTCAGATGCAACTTCATTAGCCAGTAGATGTTTAGAATGCTGCAGCTTTCATTTTTTGTTCCATCACTTTCTTCAGGCTGAAAATTAATAGTTTTGCCTGAATATGCATTACAACCTATTTACATACTGTAAACATGATGGGTAGGCATTAGTGTCCATAAAGAAAGGATTTTATGAGTGCATGGTCTTTGTGGTCCTGGTTCTTGGAGTCAAAAAGGGTCAAGTGAATCTGAGCTTCTTTCATCTAAGTCTATCATAATAATGAAGAAAATTTTGCAATTGCAAGCAAATCAAAATGTGATTGCTAGCTATCATTGACACTACTTTGTCCTTCTTTCCATGTATATACATTAAGGAAGACATGTAAATCCAAATAGCATTTCCTCAAATTTATTTCCGCTTCACCACCATCAAGTATGGGTGTGACCCAATTGCTGACTGCTAACAGTTTGTTTCTTTTCCTCTTTCTTCACAG
Seq C2 exon
ATTGCATTCATTCAAATGGTATAGATTATCGTGGTACAGTAGCAAGAACTGCAAGAGGCAGAATTTGTCAAGAGTGGAGTTCTCAGACACCACATAAACACGACTACTTCACTCCAAGGACTCATCCAAAATCAGGCCTGGAAAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.150
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(44.9=61.4)
A:
NA
C2:
PF0005113=Kringle=PU(60.0=96.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
GGACCTGAGGCAGAATTATTGCA
R:
TTCCAGGCCTGATTTTGGATGA
Band lengths:
310-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]