GgaINT0049230 @ galGal4
Intron Retention
Gene
ENSGALG00000003553 | ABCA12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:HGNC Symbol;Acc:HGNC:14637]
Coordinates
chr7:4240568-4241837:-
Coord C1 exon
chr7:4241508-4241837
Coord A exon
chr7:4240638-4241507
Coord C2 exon
chr7:4240568-4240637
Length
870 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CAATTTTGTTTATTCCACAGAGC
3' ss Score
8.36
Exon sequences
Seq C1 exon
TACATGAAGATGATGGGTGTTAATGCAAGCAGCCATTTTATCGCCTGGTTCATAGAGTGTGCCATCTTCCTTCTAATCACAGTCACCTTCCTCATCATTGTCCTAAAAGTGGGTGACATCCTTCCTAAAACAAACACAGCGCTCCTGTTCCTGTACCTTATGGACTACAGCTTGTCCATCATAGCCATGAGCTACTTCATCAGTGTTTTCTTCAACAACACCAACATCGCAGCGTTGGTGGGCAGTCTCGTGTACATCCTCACTTTCTTCCCCTTCATTGTATTGCTTGTCATTGAAAATCACTTGAGCTTCTCTGTGAAGAGCCTACTG
Seq A exon
GTAAGTTCTGCTTTTCAATAACGGGGATTATGTGTGTGGAAGCAAACGTTCACCTTCAACACACTTCAGCTCTTCTTGAGGCTTGTGTCACAAATATACATGTTTGTAGCCTTTCTAAATTCCGACAGTGGGTGCTGACACATGCTACATTACATAACAGAAGAGCTGGTTGTGGCCTGGTAGAGGGAGACCTGTGTCCCTTCACTGAAAGCAAAACTTGTGGCATTTTAGTGAGTAACCACTGCCAGCTGAATCAGAGTAGTGTGAGCTGTACACTTTACCCTCTCAAATTGCAAGGCAAAAATAGCTTACCTTCAACCATGATGAAGAGGAAGGCTAGTCAGTAAGGAGTTAAGGTTGCAGGACTGTGAGGGAAGGCTGGTTCTGTTCATTCCTTAGTTGTGTGCGCCTCGAATTTGTAGCCATGGAAAAAGAGATAAAGCTTTGTCACTTGCCAAGGGTGGAAATAGGTAGGTGTTAAGTACCAGAGGTCACATTTGTTTTCAAGTTCACCAAATCTGGGAAAGGACACCTTTTAAGTCAAGTAGTAAATTCATTAGCTGTGTCAGGTAACTTTATATCACTACTTTATTTCAAAAGCCTAAGTTAAAGCCCTGGCTGAGGGATAAAGTAGGATACCGGGAGTGGAAGCAGAAGGAAGAAGGACTCTAAGGGGATATTACAGCCCATCATCTGAAGTTCTGCCCATCAGAAGCTTGTTCCACTGCTCTTTGTGTCTGTTGGAAACAATCTTACTCATTTTTCCAGTTAGTGTACCAAACCAGGGAGGTACCTGATGGGTTGTCTGACTTAAAATCTCTTTGAGACTAATTAACAAAGTCTTTGTTTTCAATTTTGTTTATTCCACAG
Seq C2 exon
AGCCTGTTGTCTCCAACTGCATTCAGTTATGCAAGTCAGTACATTGCTCGCTATGAGGCACAGGGCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003553:ENSGALT00000005620:25
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(26.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(5.6=100)
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:
GCCTGGTTCATAGAGTGTGCC
R:
TGTGCCTCATAGCGAGCAATG
Band lengths:
350-1220
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]