GgaINT0123094 @ galGal3
Intron Retention
Gene
ENSGALG00000016890 | A3F958_CHICK
Description
NA
Coordinates
chr1:149571066-149572597:-
Coord C1 exon
chr1:149572397-149572597
Coord A exon
chr1:149571330-149572396
Coord C2 exon
chr1:149571066-149571329
Length
1067 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
CAGTGTTGTTTTGCACGTAGGTG
3' ss Score
6.42
Exon sequences
Seq C1 exon
CCCACATTTCCAGTGGGTCCCACAATAGGAACGAACACGGCTATTAGCTTTGCTCCGTACCTAACGCCAGTAACACCAGGAGTTGGCTTAGTCCCGACTGAGATCCTGCCCACGCCACCCGTCATTGTTCCTGGAAGCCCACCGGTTTCAGTCCCTGGTTCTACTGCTACTCAGAAACTCCTCAGGACTGATAAACTGGAG
Seq A exon
GTACTGTAGACACAACCATGGCTAGAAATGCAGTTCTCTGACACGCTGTAGGAGGAAACTCTGGAGGAAAAACTCCACTATTTTAGAAACTGTACTTAAAATATAGTTGCTAAAAGTGCAGATATCATAACTAGCCACAGTTCCTACGCTTGCAGCCAATAGCAATTAAACACTTATTTGGAGGTAGTTTACTCAAGTTTAATACGTAGAAGTCAGCATGAAGTTTCATCTTTCTTTGTCTCTTCAAATGTCCCTCAGGTTTACGTGCCTGTAAAGGAATGCTTTGGTGAAATATCTAACAAGCATATTCTTATTGCAGTGTTAATTCTCTCCTGATTTTAATTAATCAGTATTAGGGTAATTTTACAGGCCTTCAGCCTTGAGCTTCCACTGTAGGAGTTGCATGTCACAAACCTCAGAGCAGACTGGGCAGGAAAGCCCCCAGTTTCGTGTAGGGCCTCCATGGAGTTGGTGGATCCCCACATGGCCAAGCTTGGTGGAATCTATGGTCCAAGCACACAGGAGGGCCAAATGCTGCTTACAGAGATGAACACCCTTTCCCAAAAGCCCAATATCTAGAGCACATTGCTCCTCAATAAATTCAACCTGGTTCTGTCCATTTTTAAAAATTGTGTTTTGGAGGCTCTCCGTTTTGCTTTAAGACTCTATACAGTTCTTTGTATCTTCCTTGAGTGTCAACAAGAGGAGCACCTTCCCTACCAGTGGAGTTGAAAGAACTTAGAATACAGTTAAAAGGGACTGAGCATTGTGAGTCTCAGCTAGTTTTGCAGGGGCAGTTACTTCAGTAAGAATCCTTCCCAGGTGTTGTCTAGATACGAAAAGGGAAGGACGTTTTGGATTGTTTCTGTTTCATGTCCATTTAGCCACCATACCACAGAGCTACCCAAGGAGTGGTAAAATAGATGCATTTTCCCTCTCCCAGAAGAAGATAGCGAGTTCATTAAGTTGGATTCGCTGAGCTAACTGGGGGAGGGGGAAGGTCCATCTTGGGAGGCGTGGGCTCTCCCTGCCGTTTCGGGTTGCAACCAGTGTTGTTTTGCACGTAG
Seq C2 exon
GTGTGCAGGGAGTTCCAGAGGGGAAACTGTGCGCGTGGAGAGACTGATTGCCGCTTTGCACATCCGGCAGACAGCACAATGATTGACACAAACGACAACACCGTAACCGTGTGTATGGATTACATAAAAGGTCGTTGCATGAGGGAGAAATGCAAGTATTTTCACCCTCCTGCACATTTGCAGGCCAAAATCAAAGCGGCGCAACATCAAGCTAACCAGGCTGCAGTGGCAGCCCAGGCAGCTGCGGCAGCTGCGACTGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016890:ENSGALT00000030196:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.836 A=NA C2=0.330
Domain overlap (PFAM):
C1:
PF0064219=zf-CCCH=PU(11.1=4.5)
A:
NA
C2:
PF0064219=zf-CCCH=PD(81.5=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCAGTAACACCAGGAGTTG
R:
GATGTTGCGCCGCTTTGATTT
Band lengths:
345-1412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]