GgaINT0034972 @ galGal4
Intron Retention
Gene
ENSGALG00000005752 | ABCA4
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1N8D7]
Coordinates
chr8:12650064-12651277:+
Coord C1 exon
chr8:12650064-12650203
Coord A exon
chr8:12650204-12651139
Coord C2 exon
chr8:12651140-12651277
Length
936 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCC
5' ss Score
5.77
3' ss Seq
ATGTCTCTGTCCACTTGTAGGTG
3' ss Score
11.15
Exon sequences
Seq C1 exon
CCTTACTGTAGCAGAGCACATCTTGTTTTATTCCCAACTAAAGGGGAGATCCAGGGATGAAGCTGAGCAAGAACTGGAAATGATGCTAGAGGACATGGGCCTCACTCATAAAAGGAATGAAGAGGCTCAGAATTTGTCAG
Seq A exon
GTGCCCTTCAGATTTTTTTGGAATTTCTTTTTCTGATGTCTTTTCCTTGCCTTTGAGTGAAGAACTCAAGTATTGAGTTCCATGTTGAAGGCTGTATTTTGCCACATCACTGTGCAGGTGATTGTCTTCACTCTCACAGAAATTGCTTAATGGAACTACACAAATAGTAAAGCTGACACTACCTTTCCTTAAAGTTTCTGCTTCTATATATATGACAAATTCAAATATGCTTAAAATTGTTCTATTTAAATGAGTATATCAAAAATATATCCATCAATGTAAAAAAATAAAAATGCATACAAAATACAAAGAGCAAAATACAGTATTATTTCAAGGCAAATGAAATATTATACCACCATAGAATCGCTAAGGTTGAAAAAGACCTCAAAGATCATCTAGTCCAACCATCCACCTATCACCAGTATTTCCCCACTAAACCATATCCCTTAATATCACATCTAACTGTTTCTTGAATGCAAGTAATTGGTCCCCTGGTCCACTTTTTGGGTCAATACAAATAATGCAGAATACTTCTTTAATTCTAGAAGTAAAAGTGCATGTAGTGTATCTGAATATACTCAATTCCAGATTCAAAAGTTGAATTCAATAAACAGTCAGGAGCTCTTACACTACTTTGTCCATCTTGCCACTGTAGAAGTTGGCCAATTTCACATGAGAACATGAAAAATCTCAGATCTTATGCTTCAGATCAGAACTAGAAAATGAAACACAGAAGTGATAAATTCTATTTAAAGGAATTTTGAACTTCACAATAAAAATGTGACTATTGATTCCACTTTGTAGAAGCATTTCTTTTTCAGGATGGATTTTGTTTTATTTTACCAATCTGTCCCAACTCTGGAAGACTCTGAAAGTTACATTTCTACCACCTGCGTTGTTCATCTCAGATTCCTGAATGTCTCTGTCCACTTGTAG
Seq C2 exon
GTGGAATGCAAAGGAAATTGTCTGTTGCCATTGCTTTTGTTGGTGAAGCAAAAGTGGTGGTCTTGGATGAGCCCACTTCTGGAGTTGATCCATATTCTAGGCGATCTATCTGGGATCTTCTGCTGAAGTACCGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005752:ENSGALT00000009238:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.9=55.3)
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:
CCTTACTGTAGCAGAGCACATCT
R:
CTGAGCGGTACTTCAGCAGAA
Band lengths:
278-1214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]