GgaINT0129135 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7935306-7936209:-
Coord C1 exon
chr18:7936109-7936209
Coord A exon
chr18:7935533-7936108
Coord C2 exon
chr18:7935306-7935532
Length
576 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTGACCTTGAATTCCTTTAGGTG
3' ss Score
8.7
Exon sequences
Seq C1 exon
ATACCTGTTACAATTACTCAGGGCAGTACTGCGAGAGCCCCAAGTACTGGTACAAAGGTTTCCTGTCCCTGCAGTCCAGCATTGATGCTGCTATTATAGAG
Seq A exon
GTAAATCAAAGTTATGAACCACGGTCCATCTCCTTTTAAAAGATAAGTATCTCTCTATCTAGGAAAGACAAATTGTTCTGTGACAATAGCAAGGGATGAGCTTGTCAGAAAACCTCTCCAGAAAAAGCAAATACTGCCTGAGTATTATTGGCAGCAACAGCAGTGACTTGGATGGGATCGGCAGTTTCCTGCAGAAGAAGTTGGGTTTCGATTTCATTTTGAAGAGCTGTGCTAACTTTGGTTTCTCTTCAAAATTGCCTTTGCTCCTGAAGGCTGGGAACCAAACGCAACGCCACTGCTTGGTTTAGTGTATTTCCCAGGTGTCATGGAAAAGGCAGTTCTTGGGTAGCACAAACCTCTGCTGGGTGTGTTGGTTTTGATAGATGATGGAGGGAGTCCAGCTGAGCCCTTCCCATTGGACTTCATGGCATTACTCCCTGATGTCTGTAAGGTTGCATTGAAAAGTAATATTAAAAAGGCATTCTATGGCAGATGAATCAGAAGATTCATTGTACAGTCACAACTCACTGTAGAAAATAAACTGAATATTAATATTTTGACCTTGAATTCCTTTAG
Seq C2 exon
GTGGTGGCAAATCATTCTGTTTGGGAAGAAATGAGAACAATTACTGGTGTGCGCATGAAGTCCCGCAGTGTCATCTCCTCGATTACGTTAGAGTACAGTTATTTCATGATTACTATCGTGATGTGCTTCTCTTCATTCATGTATTTCTTATCTGTGAATGTTGTAAGAGAAAAGAAGAAGCTCAAAGTACTGATGAAGTTGATGGGGCTACACGATATGGCATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:4
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:
PF126982=ABC2_membrane_3=FE(8.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.5=100)
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:
ACCTGTTACAATTACTCAGGGCA
R:
CAAAATGCCATATCGTGTAGCCC
Band lengths:
326-902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]