GgaINT0049233 @ galGal4
Intron Retention
Gene
ENSGALG00000003553 | ABCA12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:HGNC Symbol;Acc:HGNC:14637]
Coordinates
chr7:4238548-4239640:-
Coord C1 exon
chr7:4239488-4239640
Coord A exon
chr7:4238726-4239487
Coord C2 exon
chr7:4238548-4238725
Length
762 bp
Sequences
Splice sites
5' ss Seq
TATGTATGT
5' ss Score
3.25
3' ss Seq
CCTTCCCTTTGTTTTTGAAGGTG
3' ss Score
10.03
Exon sequences
Seq C1 exon
GAAGATACGGCATGGCTGCTCCCTGGTATTTCCCACTGCTTCCATCTTACTGGCTTGAATACAACTGGCTCCCCTTCTGGAGTGAGAAACAAAGAGGCTTCATCTTCACCAAGCTCATGTTAAGGAAAGAAGCCAGCTCCAGCAATCAGATAT
Seq A exon
GTATGTGAATACTGAATGGGATAGCGATGCTAGCACATGCTTTAAGTAAACAAAGCCAGATATGAGAAGGGGCACCATGCTCAGAAAGCACATTTCTATGTTAATCCTTACTTTGTAGCACAGGAAAAACTGGAAATTATTACTTATCCAAATGGAGATTTGGCTTTTAAATTGTTTTGTTGCTTTTTTTCTTCCAATTTGATGTGGAAATCCAGTACTGACATTCACATGCATAGCTGTGTATATTGTAGTTGAGCGGACACCTTGGGTTCATATACCTGACCCTACAGTGCTCTGTGTAGAAATACATTTTTGTTTGTGAAAGCAAATACATAATTCCACTTGGCAAAAGGAATGTCTGCTGCTTTGTCCATTTTTTAAAATATTTAGCCTATAAAATATTATGAAATCACACATACAAACTTGCCAGTTCTACCTAACAGAAAGTAACTCAATAGCTTTGCTGTATTTCCTCTAATTTTATATACTTGTTTGGTGTAGATTAAGTAGGTGCTCTGAAAGATCTAAATATAAGACCTTATCAGAAGAGATTAATGCTTATTGTCAGAAGTTATAACAAGTTGCAGAAGTGAGAAGGAAAAATCCAGGAGAGCTCAAAATGTCTCAGATCCTATGAAATGTTCTCTACATTCCTCATTGAAAGTCACCTGCTTTTGCTGTGTTATATGCTATCGAAAGCCTTGCTTGTCTCTGAGTTGAAAAAAGGTAACTGTCCTCTCACCCTTCCCTTTGTTTTTGAAG
Seq C2 exon
GTGCCCCCCCGCCTCACCTGGAGCCAGAACCCACTGATCTCACCTTGGGAGTCTCCCTCCATGGCATAACAAAAGTTTATGGATCCAAAGCTGCAGTGGACAACCTAAGCCTCAACTTCTATGAAGGGAATATAACTTCCCTGCTGGGACACAATGGAGCCGGGAAAACTACAACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003553:ENSGALT00000005620:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.050
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(18.4=45.0)
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:
CATGGCTGCTCCCTGGTATTT
R:
GGTTGTAGTTTTCCCGGCTCC
Band lengths:
319-1081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]