GgaINT0092070 @ galGal3
Intron Retention
Gene
ENSGALG00000015142 | F1NJD5_CHICK
Description
NA
Coordinates
chr2:109268818-109269870:+
Coord C1 exon
chr2:109268818-109268960
Coord A exon
chr2:109268961-109269642
Coord C2 exon
chr2:109269643-109269870
Length
682 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCATGTTTTGTAATCTTAGATC
3' ss Score
5.99
Exon sequences
Seq C1 exon
ATATATCAAAGGAAGAGACCCAGCAAACTGGATCATAATAAATTCAAATACTGCTGAAATCCAACTTGCTAAGAACCTCGATTACGAATCATCTTATGTAGTAAATGGTACCTACACTTTTACCATGTTGGGTGTAACTACTG
Seq A exon
GTAAGTTTAGAAAGTTCTGTTTCTGCATTACTGGATCAGGTGTCTTTTGTTAATTTCCTGGGGTTTTTGTTGTTGTTGTTTGTTTTGTTTTGTTTTGTTTTGTTTTTAGGGCTTAGTTTGTATTTCTATAGCTACAGTTGGTTTAACCTCCCTACCTTCAACTGCCTATAGTTTAGGTGCCCAGCTTCCAATAGGCTCTGTGTTTGGAGGAGGGACAAAAGCAACTCTATGAAATGGGACAGACCTTGGACTGGGTTCCCAGGATGCCTGTTTCTCTTTGACTGTATGGAGATGAACTTTTAAAATAAGTTTTGTGAAGACCTAGGTGGAAATTGTCAGTATCTCACTATGATAATAAGCAGATTTCACAGTCCTAAATTTTCTGGAAAGCTAAGTTGGAAAGAATCTCTGAACTTCTTGTGTGTCTAGTTAGAATTCTTTGTAGCCTGCTTGTTATTGTGTAACTATGCACAAGAAATACATTTTTACATTAAGGTAGTAAAACAACTTGCCTTCAGAAGAACTTCGCCAACGCATTCATTGCCATTAGGAATGAAACATTGCTTCCATAAACTCATTTCAGAAGTGTTTGTGTTTTGGAAAACATTAAGTTTTTTATTTTAAGACAAAATTTCCATACTTGTCAAATGTTGATTTAATTTTTCATGTTTTGTAATCTTAG
Seq C2 exon
ATCTTCCTACAAAAACAGTTACTGGCACCGTTGTTATTCACATTCAAGATGAGAATGATAACTGCCCAATTATTGAGAACCCTGTACAGACTGTGTGTTCAGATGCAAGATTTGTTGATGTTACAGCTAAGGATATAGATAGTTACCCATACAGTGCTCCCTACAGCTTTTCTGTCATTGATGAGCCAAAAGGAACAGCAGAAAAGTGGATAATTGCATCCAGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015142:ENSGALT00000024433:9
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:
PF0002812=Cadherin=FE(50.0=100)
A:
NA
C2:
PF0002812=Cadherin=PD(15.6=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAAAGGAAGAGACCCAGCA
R:
TTCTGCTGTTCCTTTTGGCTCA
Band lengths:
342-1024
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]