GgaINT0049211 @ galGal3
Intron Retention
Gene
ENSGALG00000003553 | E1C7T0_CHICK
Description
NA
Coordinates
chr7:4294988-4296015:-
Coord C1 exon
chr7:4295933-4296015
Coord A exon
chr7:4295174-4295932
Coord C2 exon
chr7:4294988-4295173
Length
759 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TCAAACATTACACCCTCTAGAGC
3' ss Score
3.32
Exon sequences
Seq C1 exon
AAAACACACTTTGGAATATTTCATCACCATCCAACTTGACTTCTAACATCAGCATATTCAACAGAATCCTTAGTTTTGAGAAG
Seq A exon
GTAAGTCTGTATGTGTATAATAGCTGTATTTGAGCATTTATGTATAGTTATATGTAAAGAATTAAAAGCTCTATGTACCACACATGGCCTTTATTTCTTTAAGATCTCCCTTATTATATGAATTTGCTTTATTTTGGGAAGAGGAAGACAGTTATTGTGGATGCACTTTTAAATTCTATGGTAAATTTATTATTCTCTAAGCAGAAACCAGATAAACTATATACCTTGGGGCATAATACTTTGAATGAGCAAACACTGGCAAGCAGTAATCTGAGGCATTTTCTACAAAACTTATGTGAGTTAAGGTGGTCTTTCATGTGAAATTAAAGTTGGCTTTGCCACTGACTTCTGTATTTGCTCACAGTACTGAAGCAGTGGTGTCATGTACTGTATGTTTATTATGTAGGTAATTGAATCAATATCAGAATAAATCCTTTGTAATTGAAGCTTGGTGGCATATAAGGGACACCAGTATGCTAGGGACATTTTCTGCTATTAATGATTGATTGACAAATGTTTAGAATATGCTTATTTATTCTATTAAGTTCTATAAACACATGCATACCTGTTTATCTGCATGAGGACTTTCAGGGGTTTCAGTAATGCTGTTCACCTGCTAAAATTCAGTATTTGTGTAAGTACTTGTACTGACAGTACTTTTCACATGTCACTGCTACCTAATTAGAAAAAAAGCCTCAGCGCTGTTTAAAACCATCACAAATAGAGTATTTCTTTAACCTCAAACATTACACCCTCTAG
Seq C2 exon
AGCGAGACGCAATATTCAGTGGGAGCAAATCTCAAAGTCATTCTGTGTGAGATCTTGTCACGATACGTACCAGCTCCTGGTCTCACCGAAGAGAAGATGGCAGCCAACATCTACAGGACATTCTGCTTTACTGACTCATCTCTTTTAGAGTCCTTTACCCAAGAGTTCAGAAATCAGTTGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003553:ENSGALT00000005620:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
ACACACTTTGGAATATTTCATCACCA
R:
GACAACTGATTTCTGAACTCTTGGG
Band lengths:
262-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]