GgaINT0016407 @ galGal4
Intron Retention
Gene
ENSGALG00000001967 | ABCA3
Description
ATP-binding cassette, sub-family A (ABC1), member 3 [Source:HGNC Symbol;Acc:HGNC:33]
Coordinates
chr14:13587965-13590222:-
Coord C1 exon
chr14:13590123-13590222
Coord A exon
chr14:13588230-13590122
Coord C2 exon
chr14:13587965-13588229
Length
1893 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
ATCCCTCCTGGCTGCCTCAGAAA
3' ss Score
6.35
Exon sequences
Seq C1 exon
GCAGAGTCCTGCAAAGCGGCGGCGGTGGTCCCCGTCGGATGGGAGGATGGTTGTTCTCAGGCAGTTTGGGCTGCTTCTCTGGAAGAACTACATCCTGCAG
Seq A exon
GTAGGCTGGCACGGCGCACTCAGGCACCTGCGCGCCACCAAATGTCACTGCAGCAGAGGTTGCTGAGCATCCTGGTTCTCGTGCTTGCATGTCAGGGAGGAGTGAGCAGGCGTTGCTGCTATGTCCCCGTCCCCTCCCATCCACACTTCACCATCACCCTCACTTTTATTGGGTGCAGCTTCAGTTCCCACAGGCAGGACAACCCGCGTGCCCTCCTGTGTGACAGTGGCTTTCTGAGCTGTCTCGCAACCCCTCTGACAGCCTCTGGAGGTGGTGATTGCTGTAAACCTGCTGTGACCCAGTCGGTTTTTCTCGATTAGTTTGTGCTGTCCTCAGAAGCAGCTTTTAGGGATGCGTGGGCTGCTTTAAACTGTGCTGTCCTGGCATCTGCTCCCATCCCAGCTTTGTGCGTGGCAGCTGGCTGTCGTAAGGGGCTTAGGGAGCTTACGGGTTCGCTGCCTTGGTGCTGGCCTCCCCCAGTAGTGTGAAGGGGCTGCAGACCCCTGAATGCCCAGCCCAGAAGATGTGCTCCTGGTGAAGGCATGGAGCTCCGCAGCTGTCAGCTGTGCCGTGAAGCTGAGTGTTGGGCCCAGGGAGGAGGACACGCCTTGCTCAGAGCTGGCAGGGGTATGATTATGGATGAGTGTCCCCATTGCCTCTGAAACACGGCAGTTTGAGTGAACTGTGCGGTAGCACGAGGCTGTGCTGCTAAATGTGTGCTAGCTGCTGAGTTCACAGAGTCAGGCAACTGTTCTGGAGGCAGTCCAAGGGGTTATTAGAGGGTTAATTTGGTAGTAAATCAGCAGAAGGCAGCTGGTTTGCAAGAGCTGCATTATAAAACCATCAGACATCTGCAATGCTCGCTTTTATGAGCGTGCCCTTTGGAACACTCCTTTTCCCTGCCAGCCCTGTTGCGGTGCTGGGGCTGACCCTGTGCTCCTACTTGGGGCTGTGCCCCTCTCTGTGGCGTGGTGCCCAGCAGTCACTGATCCTCTCCGGACCGTTGCCCAGCAGGAGGTGCTGGGCGAGGAGCTGGATGCCCAGCTTGCACATTGTTTTCCTCCCATCTGAAAAATAAAACCTTTCTCCACCCCGCAGAAAACCTGTGAGGTTATGGCCCAATGTGCAGCGCCAGTCAGGGGTTGGTGTTTGCAGATCTGAAGGAGCTGCCTTGGAGCACAGCCTTGGAGTGGAGGCAGGGAGGAGAGGCGGCGAGCTGCTGAGGTGGTCAAGCTGAGAAGATAACCCCTTTGGTGCTGCTTGTGCCCCTCGTGCCCATGTTGTCCCAACTGTGGCAGACAGAGGCTGCAGTGCCCCTCACTGCTGTCTGAGCAGGAGCACTTGGAGCTTGGCATTGCTGCTTCTGCCAGCATGCATGATGCCAGGTTCCCACTGAGTCTCGCTGGCCACGGGCATGCATGGAGAAACCTCAGGAGCTGTAGCTGCAGTGCTTGAGGTTGGGCGAGGTGTATTGCCTGGGGTGTGGGCAGCTCGGGCTGCAGGAGGAAGCACAGGGGGTGCAGCTCTACCCGGTGTCCCGTTTCCCCTGCAGTGTTCGGTCCAGCCGGGCGCAGGGCTGGGCTGTGCCCCGCTGCCCACGGAGGGGCACTCTATGGCAGTCACCTCCATCCCCCACACCATCCTGCACAGGGCTGAGCTTCCAGAGCGGTGCACTGCTGCCTGCCAGCAACCATGGAAAAGCCCACTTAAAATGCTAATTAACACACGGGCTGAGCAGTATAGCAGATAGTGGAAAGCTCGCAGTGTCTGGGAGGCAGCCTCTGGGGCTTCAGGTTCAAGAAGCATTCTGAGGCGCGCGGTGGTTTTGGGGATCCCCTTTCCCTTCTTCCAGTGCTGACATTTATTTCCACCCATCCCTCCTGGCTGCCTCAG
Seq C2 exon
AAACGTCAGATTTTGGTCACCATCATAGAAATCTGCCTGCCACTGCTGTTTGCTGCCATCCTGATTGCACTGCGGCACCGGGTACACTCCGTCAGCCACCCCAATGCCACCATCTACCCATCCCTGTCCGTGGATGACCTGCCAGGCTTCTTCTACCGCCGGCACCCCGGCAACCCCTGGGAGCTGGCGTACGTCCCGTCCAACAGCAGCGCCGTGCAGAGCATCGCCAGAGCAGTGGAGAGAGCTCTGCCCATCAGCATCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(18.8=94.4)
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:
CAGAGTCCTGCAAAGCGGC
R:
GAGCTCTCTCCACTGCTCTGG
Band lengths:
346-2239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]