DreINT0023541 @ danRer10
Intron Retention
Gene
ENSDARG00000074635 | abca1a
Description
ATP-binding cassette, sub-family A (ABC1), member 1A [Source:ZFIN;Acc:ZDB-GENE-031006-12]
Coordinates
chr1:51983599-51986824:+
Coord C1 exon
chr1:51983599-51983733
Coord A exon
chr1:51983734-51986720
Coord C2 exon
chr1:51986721-51986824
Length
2987 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
GGCTGTTATTGTGGTTACAGGAC
3' ss Score
5.85
Exon sequences
Seq C1 exon
GTCGCAGATTGGGGCATCCGCAAACTGGGCCTGATGAAGTATGTGGACAAAGCAGCAGGAAGCTACAGCGGAGGAAACATGAGGAAGCTTTCCACCGCCATGGCGCTCATTGGAGGACCGCCGGTGGTGTTCTTG
Seq A exon
GTGAGTGAAATGATAATAAAATGCACACATTTGGTTCAGAGTTTAAACTAATGGTCTACAAAATGCGTTTGTATTGATGTTTATTATTGAAATAAGCCATGAAGAGCAGAAAAATATATTATATACACATACAGCTGAACATAGCAATATATAGCAAATATAATGTAGCAAACAGGGAATATATGTGTATATATATATATATATAAATATATGTGTATATATATATATATATATATATATATATATATATACATACATATATATATATATATAACATTTTTAAATGCTAATAAAATGCAACTTAATATTATATATATATAGTATAGTTGCATTTTATTAGCATTTAAAAATGTTAATGAATGATCTAAATACAGATACTTCGCATACTTAGCAAAATATAGCAAATATGATGTAGCAAGTAAGGTAAACATAGACTAAATAAAATGTAAATGTAATTTGCATTTTATTAATAATGAATTGTTTTTAAATAATCTAAATACAGATATAACTACACAAATGCCCTTAGTAAAATATAGCAAGGTAAAATATAGCAAGTATAATGTAGCAAAAAAAAACATTTTATTAATAGTTATTAGTTATTTTTATTAATAGTTATTTTATTAATTAAAAAAACAAAAGCATTTTATTAATAGTTAATTTTTTTTAAATATTATAAATATGAATGCAGCTATACAGCTGTGCATACTTAGCAAAATATAGCAATGCAATGTAATAAATATGTAAAAAGTAAATAAAATCCAAATATAAGCTGCATTTTACTAACAGTTAAACAAATTAAAAGCTTTGAAATGATTAAAAATGAAAGCAAAACATTATCAGACAATACAAGGAGATGGTGCATAGATAAAATACTGCAAAATAGATAAAAGCCATGTATAATCAAAGAAAAGTAAATAATATGAACATTTAACACAAGAAAAGCTATTTAAATCCTATGCAAACTATATTATACCACCCTCAAATATATCAAGGAAAATATAAGCAATGGTGCACAGCTGGCAAATCACAAAAAATGCTAAATATTATCAACATTTAAAGACAAGGAGCAAATACACTTGTTGTTTACATAAAAACATTAGTTTTATCTGCAGTTAAAAATGCTATGTATTGACATTAATTGTTTGTGAATAATCTAAATGCTTAGTGAACTATAGAAAACATGTGCGTAGTTACACTGCAAAAAAATAATATCTGTTAATTAACAGTATTTGTATTTTGTTTCTGTTTATTATGAATTGCATTGTGGGATGTTGATCTCTTCTCTGTCGCCTTTTTTAATCTCTTTTTTAATTAGAATGCAACACAAAATCAGAGATATGTCAGAAATAGTCAATAAGGGTACAGATGGGTACTGAAACGATTCGAGAGAAAAAGAAAAAAGGAAAGACATTTGTACAGTGTTACTTTAAAACAATATATTGAGTTAAATGGCGAACCAGTGGGGCAGTAGGTAGTGCTGTCGCCTCACAGCAAGAAGGACGCTGGTTCGAGCCTCGGCTCAGTTGGCGTTTCTGTGTGGAGTTCTCCCTGCGTTCGCGTGGGTTTCCTCCGGGTGCTCTGGTTTCCCCCACAGTCCACAGACATGCGGTACAGGTGAATTGGGTAGGATAAATTGTCCGTAGTGTATGAGTGTGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGTCGGTTCATTCCTCTGTGGCGACCCAAGATTAATAAAGGGACTTTATTAAAAAATAAATAAATAAGAAAAAGGGGGTGGGAGATGTCTCATATACTTATCGTGTACACAATGTGGCTGTTTACTAAATCTACATTGTATGTTTAAAGTTAGTTATGTATAATTCTTAGAATAATTCCATCGTGCTTCAAATATATTCATCTGGAGTCTAAGCCAATAAGTTATTCTTTCCATTTCATAATTTTCTCTAATCAATTTGATCCATTGTTCATATGTATGTGGGTCTGATCTGAGCCAATTAGACGTAATGCATTTTAGTGCTGCAGAAAGCAATATTTGAAGTAAATAAATAACTCTTCTTTCCTCCATACTCTCAAGTACCATGCCTAGAACTGCCACGGTTGGATCAAAGGGAACATCAATATTCAAAGTATATCTCCAAGTACCTTATAGATATCTTTCCAGAACTGCTGCAGTTTTAGGCATCACCGAAAGATATGAGAGTGGTTTCCTAAATGATCACCACATGCTCGGTCGCCTTTTGATGATGAAAATTCAGCTCTACAGTTTAACAAAGTGACTTTTATTGACATTTTAGTAGTTTGAAATAATATAACGAATAGGGAAAAATATATAGAGAAATAAGTGTAAAATGTGCTGGCAGTTATTACTAGGCTTTTGTAATGCAATATGAAACACCCACCCAGACAATATATCAGTTTAAACTATTAAAAATACGCATGAAAGTCACATTTTACAACTTTCCAAGGTTAAAAGTTGTTGAAAGAATGATCAAGCTCCCATAATGCTATTCAAAAGCATCAATAAACAAAACTGCTAGAGACTAAAGGACCAAAATATATTTTCATTCTCTCCAAAACACGCACAGATCTGCATATGGGTGTATTTAGGTCACCTCCATTTCATGAAAAGATCTTGTGACACTCGCTCCAGTTTAGTTCAGTGCTGTTGTGTAACAGTCCTCCAGTTGACGGCCTGCCAGACCTCTTTTTCCCAGAACAAAAGCACAAAAAAAATGTCAAAATCCCACACGGCGTTTAGCTCTTGCCACATTTTTAATACGGCGTGAAGCGTTTAACTCTCAGAGGAGCATGCTTGTGTTGAGCAGTCGAGCTGTTGAGCAGAGGCAGCGCAGACGCCAGGATCATGATCACTCTTTTCCCACTCTTCATGGTTTTCTGCCTGTGTTTTCTGCTCAATCTGTGGGCCACGGTTAACCTGGCTGTTATTGTGGTTACAG
Seq C2 exon
GACGAACCCACCACTGGGATGGACCCCAAAGCACGGCGGGCCCTGTGGAACTGCATCCTCAGCATCATTAAAGAGGGACGCTCCGTCGTGCTGACCTCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074635:ENSDART00000142465:45
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=0.029
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(30.3=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(2.8=11.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]