GgaINT0092066 @ galGal3
Intron Retention
Gene
ENSGALG00000015142 | F1NJD5_CHICK
Description
NA
Coordinates
chr2:109265381-109266483:+
Coord C1 exon
chr2:109265381-109265541
Coord A exon
chr2:109265542-109266348
Coord C2 exon
chr2:109266349-109266483
Length
807 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTTTTTTTTAATTATGACAGACA
3' ss Score
6.21
Exon sequences
Seq C1 exon
GTACAATTGTAATGAGGTTAAATGCAACGGATGCAGATGAACCAAATAACCTGAATTCCAAAATTGCTTTCAAGATCATTTCCCAAAGCCCTAGTTCTGCATTCAGTATGAATAAAGATACTGGCGAGGTTCAAGTAGCAACAATAAACCTTGACAGAGAG
Seq A exon
GTAAAAAAAAAAAAAGTATCTGTTGATAGCATTCTTCTGGTACCTGTTGTCATTTCTCTCGTTCCTTCATCCCAGTTGGGCTTAAAGGACCATTCCTTGTCTGTCTGATGTATGTTTTCCAGTGACTTTGGGAGGGGATGGGGTAAAACTTGCTTTCACCCTGTCTCCTCCCTCTCACAATGCCAGTTGGTGGCTGTTGTTTTCTGTCCCTTCTGTGGCACTGGGCAGCAGTTACATGACACAGCGGTGTCATTTCTTTGCTGGTGAGCCTGTGGATAGAACACCAAGGTCACCACCTGTAAAGCTGCTGGTTGAATCTAGACTTTTGTAGATTGCTGTACAGATCAGGGCTCAAAGGGTAAGGAATGATGCTGTCGTGGAAGTGTTGAAAGCCTGATATTGTCAGCAGCTTTCCTTATGCTTGCGTGTATTTTCACTGGCCAGCAGATGGTGATGTTTATATTAGCTCTTAGAGGCTGTGGACACCATCCCTGTTTCTAGCTCTGTCTTAATGTGCAGGTATTGCTGTGTCCTGTTCATAGCTGCTGAAATTTTTCCGTTTTCCATTTGAATGCAGTCCAACTCTTTGGGAGGAAAATGCAAAACTCCCAAACCTTTTTCTAAGGCTCAGCTGTACTCCAGTAGAAAGAGCTATGTGTAAGATTTAATAGTAGAGAGAAGATGAGTTTTAATTGGCCATTGCTTGAGAGATTTTGACAAAATAAAACACAGATAATACAGTAAGGCAACACAAAATTAGACTAGTTTAAACACTTGTTTCCTTTTTTTTTTTTTTAATTATGACAG
Seq C2 exon
ACACAAAGTAGCTATTCTTTGGTGGTGGAAGGGAAAGACCGTGGTGGTGCAGCAGATGGGAATGGTGCAACATGCTCTGTAGAAATCAAGATTTTGGATGTCAACGACAACCTGCCTGTGCTTGAAAGTTCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015142:ENSGALT00000024433:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.204 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(54.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(32.0=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATTGTAATGAGGTTAAATGCAAC
R:
TGCAGAACTTTCAAGCACAGG
Band lengths:
294-1101
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]