GgaINT0098922 @ galGal4
Intron Retention
Gene
ENSGALG00000013079 | ABCA13
Description
ATP-binding cassette, sub-family A (ABC1), member 13 [Source:HGNC Symbol;Acc:HGNC:14638]
Coordinates
chr2:79991698-79993728:+
Coord C1 exon
chr2:79991698-79991869
Coord A exon
chr2:79991870-79993509
Coord C2 exon
chr2:79993510-79993728
Length
1640 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
CTTTCATTTTCTTGCATCAGATC
3' ss Score
8.29
Exon sequences
Seq C1 exon
GCTGGAAAGGCACTTGCACAGAAAGAGCCACAAGTGGTGTTGTGTTGCTGTCTCTCACCAAAGAGCACATGGATAACCATAAGGCTGCTGTTAAAGACCTCTGTCTCACTTTCCATAAAGGTCAAATAACAGCACTCTTGGGACCTAATGGAGCTGGCAAAACAACAGTTAT
Seq A exon
GTAAGTCTGCCAGTTAATGGTGCTATGCTCCCTTCTGGTCTCTATTATGGTTTCTTAATTCAAAACATCTGTGATCTCTTTCCTGCATTTGTTTTTGTTTACGCTATTTTTAAAATAAATATTATCTTTCAATTTTTTAAACTCTCCATAGCATGTGAAATGTGAAGGCAATATGTCTATGACAAAAGCAATGCAATGAATTATGTCTTCTGTGTCACTGATACCATGATGAAATTGTTCAGTAGCAGCTGGGAATGCTTGGTTGTAGAGATGAGTACCTCTCAAAGTGTTCTTTTGTCATCCTGTGTGTACTCTAGTCACACAGAGTATGTGGAGCTTTAAGGGTTTTTATGTCTTACTTCTAGTTGTTACTAGAGGGCTTCCTGACCAGAGACTGAAACAAAATGAAAAACATCTGAATTAAGAAGTATGTGTATTTCTAACTTTGTTAATTCTGATCAACTTAAATAAAACCAGTGATGTAGGACAGGGAATCCATTAGCAATTACTCCTCAATGAGAATATACATGTGGAAAAAGAATTAATGGTCTGTTAAATTTGGCTGGGAAAAATGACTCTGGAAGTGAGGGAATAAAGGGTTGTTGAGATCTTGAAGGAGAAAAAAAAAAGGCAAAAACATTAGCAATGTCCCTCAATTTGTTAAACTGTATTGATGATCTGCTTCAACAACTTCATGTCCTTCTTCTACTGGGGCTCCAGAACTGGGTGAAGTAATCCAGGTAGGATCTCATGAGAGCAGAGAGTAGATGGGCAGAATCACCTTTCTTGACCTGCTGGTTGCATTTCTCTTGATGCAACCCAGGATATGGTTGGCCTTCTGGGCTGAAGGCACACATTGCTGGTTCATGTTGAATTTCTCATCAGTCAACACTCGCCAGTTCTTTTGCTCAGGGCTGCTCTCAAGCTGTTCTCCACCCAACCTGTATCTGTTCTTGTGATTGCCCTGACCCACATGCAGGACCTTGTACTTAGCCTTGTTGAACTTCATGAGGTTGGCATGAGCCCACCTCTCAAGCCTGTCCAGGTCCCTCTGGGATGGCATCCCTTCCCTTAAGAATGTCAACTGCACCAGTCAGCTTGGTGTCATCTGCAAACTTGCTGAGGGTGTACTCAATTCCACTGTCCATGTTGCCTACAGAAATGTTTAATAACACTGGTCCCAGCACCAATCCCCGAGGAATGCCACTTGTGACTGGTCTTCACTTGGACACTGAGCCACTGACCACAACTCTGAGTGCGGTCATCCAGCCAGTTCCTTATCTGGCGAGTGGTCCATCCATCAAATCCATTTTTCACCAATTTGGTGACCAGGATGTCATGTAGGGCAGTGTCAAATGCTTTGTACAAGTCCAGGTAGATTACATCAGTTTCTCTTCTTTTATCCACTGCTCTTGTAACTCCATCATAAAAGGCCACCAAGTTTGTCAGGCATGACTTAACCTTGGTGAAACCATGTTGGTTACCACCAGTCACCTCATCTTTATTTTCCATGTGCCTTAGTAGGGCCTTCAGGAGGATCTGCTCCATGATCCATGGATGGATCTCATTGAGTCCCATGGACTTGTATCCAAGTGTGAGATATGCTTATATGCTGATTTTCTTTCATTTTCTTGCATCAG
Seq C2 exon
ATCACTGTTGACTGGTCTGTACCCACCTAGCTCTGGTACCATTCTTATCAATGGAAAGGACATACGAACTGATCTGGCTGCCATCAGGACAGAGCTGGGTGTTTGCCCACAGTATGATGTTCTGTTCAACATACTAACAGTACGAGAACATCTGCTCCTTTATGGATCAGTGAAGGCACCTGGCTGGACAAATGAACAGTTGAATCAGCAAGTCAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013079:ENSGALT00000021357:10
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:
PF0000522=ABC_tran=PU(18.4=46.6)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCACAGAAAGAGCCACAAGT
R:
TTCATTTGTCCAGCCAGGTGC
Band lengths:
354-1994
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]