DreINT0023556 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6172670-6175096:+
Coord C1 exon
chr14:6172670-6172892
Coord A exon
chr14:6172893-6174874
Coord C2 exon
chr14:6174875-6175096
Length
1982 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
AAATTCTTTTCCCTCTCCAGATG
3' ss Score
10.38
Exon sequences
Seq C1 exon
TTTTCTGCGCATTATGAGCCGCTCAATGCCACTGTTCATGACTCTGGCCTGGATGTACTCGGTGGCCATCATCATCAAAGGCGTCGTCTATGAGAAAGAGGCCCGGCTTAAGGAGACCATGAGGATTATGGGATTGGACAACGGGATCCTGTGGTTCAGCTGGTTTATTAGTAGCCTCATCCCTCTTCTCATTAGCGCAGGCTTGCTGGTTCTTCTGCTCAAG
Seq A exon
GTACTAAGAAAACATAAGCAGTTTATTTTCTGAGACACACACTTTTGCTTTAAATAAATAATCCTTTAGCGAGTTATTAGGAGAATATTTCCCAGTTTCATTTTGTTTACCTTAAAACGTTTTTTTCATTAAAATGAAACTACAATGTAAAATGTCTACAAAAATTATATTACATAATGTATACTAGTACATAAATAATATGGGATGGCACGGTGGCTTAGTGGTTAGCACTGTCACCTAATAGCAAGAAGGTTGCTGGTTTGAGTCCCGGCTGAGCCAGTTGGCATTTCTGTGTGGAGTTTGCATGTTCTCACCGTGTTGGCATGGGTTTCCTCTGGGTGCACCTGTTTCCCCCACTATCCAAAGAAATGCTGTACAGGTGACTTGAGTAAACTAAATTGTCCGTAGTGAATGTGTTAATGATTGTGTATGGATGCTTCCCCAATCTGGATTTCAGCTGGAAGGGCATCCACTGTGTAAAACATATGCTGGATAAGTTGGCAGTTCATTCCGCTGTGGCGACCCCTGATGAATAAAGAGACTTAGCTGAAGTAAAATGAACAAATGAATGAATATATAGAGATAAAACAAAAGCAGATAAAAATGACAGAAACTCAACTAAAACGTTATCCGAAAATAAAAAGATAATGAAATAAATGAATACTACATAATTAATAACCTATGCTGAACTTTAAATAAATAACAAAATGAAAACCAAAACTAACAATACTATAATAGTATCTAAAAAATACTTAAGTGACACAGTTATTAGTAGTAGTAGTTATTTTTATTCATTATTTTAATATTTCTTATTTAAATGTAATGTTTCTAGTACTTTGCAATAATAAATGCAATATTTAAAAATTATTTTCTCATAACAATTATTATAATAAATTATCATTAAGTACAGATGAAGTGAAAAGACTGCATGATTTTCAAACTAGTCGTGTCACAGATGTTTTCACACTGCATGACTATCTGGGCTAGCGTTTCGTCGCTGCTTTGTTTACACTCGAGATAGATCGGCGACAGGGACTTTCACATTGCATGACTTTACTATAGGAAGAATCGCCGACAACTTCGTCCAAACTACGTTTCACAGCCAAAAACATGTAGTATGATGTATATCTTTTGTTTTTAACTACATAATGAGAAAGAAGCCTTTAATGGGGTAGAACATGTACATGTTAGCTCACCTGGGTTTAAAGGGAATTAGTAATTTCTCCTCAACGTTGATAATAAACTAATTTCTTTCTGTATGAAACGTCAAACAGACACGGTTGCTCCTGAGTCCTGTCAAACCTCCACTAGTTTTTCCTCCATTTCGTGGGTCCAAATAAATCGAAAATGAGCGCTTTTAACTTCTCCCCCAGCCTCCCACTGGCCAGCAGCATGTATACACACACACACACACACACACACAAGTGAAATCTACTCTCTCATTGGCTGTAGGCGATCGCTGATGTTATTTTCAGTCAAAACTCAATTCACACGGCGTGATTTGAATCGCCGACAGCTCCAGATATTTAGCATGCCAAATATCTCGCAGGCATCGGCGACTCATCGGCGATTCTCTCAGATCGCATCTTTGATCGTTCATACTGTGTGATTGTCACTCACGTGCACGAGCAGCGATTTGCCTGTGATTTCAGGCATTTGTCGGCGATTTCTCAAAACCTGACGGCGAGCCAAAATCGGGGCTAAAATCACACAGTCTGAACTAGGCATTATATAATGACTTGCCTAATTACCATAAGTAACCTAGTTAAATGGCACTTTAAGCTGAATACTAGTATCTTGAAAAATATCTAGTAAAATGTTATGTACTGTCATCATGGCAAAGATAAAAGAAATCTTTGCAATGACGACAGTACATAATATTTTACTAGATATATGTATTCATTAGGTATGTGTATATAATATGTGGCATTCTCTAAGAATATGCCTGTTACAGTGATAACAAAATTCTTTTCCCTCTCCAG
Seq C2 exon
ATGGGAAATCTCCTGCCCTATAGTGACCCTGGGGTCGTCTTCCTCTTCCTCGGGTCATTTGCTGTAGTGACCATCATGCAGTGTTTCCTGATCAGCACGGCGTTTGCACGTGCCAACCTGGCAGCGGCCTGCGGGGGCATCATCTACTTCACTCTCTACCTGCCTTATGTGCTGTGCGTGGCCTGGCAGGACTATGTGGGCTTCGCCGCCAAAGTCATCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:15
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(22.4=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(22.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACTGTTCATGACTCTGGCC
R:
GTGAAGTAGATGATGCCCCCG
Band lengths:
347-2329
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]