DreINT0023592 @ danRer10
Intron Retention
Gene
ENSDARG00000079009 | abca1b
Description
ATP-binding cassette, sub-family A (ABC1), member 1B [Source:ZFIN;Acc:ZDB-GENE-030131-9826]
Coordinates
chr14:6166603-6168855:+
Coord C1 exon
chr14:6166603-6166843
Coord A exon
chr14:6166844-6168715
Coord C2 exon
chr14:6168716-6168855
Length
1872 bp
Sequences
Splice sites
5' ss Seq
CCAGTATGT
5' ss Score
5.8
3' ss Seq
TTTTATATCCTTGTTTCTAGCTC
3' ss Score
8.45
Exon sequences
Seq C1 exon
CTGGCCAGTATGAGGAGTTGGAGTGACCTGCGAAACGAGATCCTGTTTCTGACCGAAAATGCCACTGGCTCCCCAAGTCTGATGTACCAGGCTGTGTCCCGTATCGTGTGTGGACACCCTGAAGGCGGTGGCCTCAAGATCAAATCCCTCAACTGGTACGAAGACAGCAACTTCCAGGCGCTGTTTGGCAACCACAACGACAGCGATGACCAACCGGTTCCAGTCTACGACAACACAACCA
Seq A exon
GTATGTCAAGCATATAAAAGTGTTTATTATTATTTAAATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATCTATTAATATTTAAAAGTTTTGTTTTTAAGTTTAAGCATTTTATTTAATATTTTTATAATATCATTCTAATCCTTTTCTCATCTCCTAAACAAAAGAGAGATTACTGTCTCTCTACTGAAAAACAACTCGTTTAAAAGTATTGACAAAATGTTGATTGGTGAGTATAAACAGAAGCTTTTAGGCTCATAGAACTATTGGTGGAAGTACCAGCATTTCAGCATCTTCATAACACAGGAATTACAAATTATTTTGGTTATAGGAACACCTTATGTGGGAACTAAATTAGCACAAAATGTTTTGTTTTTTCAAAGTCTACCTACATGCCTTAATATGTTACTGATGAGTATTATTTGTGAATAAAGGCTTACATGTTTAGTCAAGTGATTTAAATCTTGGACTTGTTATTATGAGTTATTATGTTATTATTATTAAAATATCTTAATTGGTGTTAAAAAGAGTAAACATTTAAAAGGACAGTTCACCCAGAATTAAGATTACTTTATCATTCAGTACGTTTACATGGACACCAATAATTTGATTTTATTGTGATTTAGACAATACTCTGATTAATATTCTACCATGTAAACAGCGATTTCTGATTAATTTAATTAGATTAAGGTCATAATCAAAATAAAGAGAAATCGAATTAAGAGTATGCCGATTTTAGTCGCATTATTGAAGTGCATTACAGACATGTAAACACCTTAACCGAACTATCACGGTTATGTAGGACTTTTTCGCCGCGTTTTTGCGACAGGATAGTCCACACACCCACACACACACACATACTGAGACCACCTACCGAGACCACAGACACCTGCATCGTGAAATGCGGAGGTTTTTTCTTCCTTTCAGCATGCAGCATGAACTTCCATTAAAACAACACTCTTCCTGCAGTTCATAGTTGCATCCAATATCTCGTTTGTCATAGGGGCATGCATGAAATGTTCCCGAATGAAAGTGAAAGTGCAAACTGCAGTTAAATTCGAGAAATTAAAAATGAAACACCTGAAATTAATGAAACTCCAGAGGAAATGTGGATAACGTGGTGACGCGATGACGTTAATTATGTGCTAATAACATGTAAAATGGGATCATGAAAGCAACATTCATAAAGCAACTCATGTAAACGCCTTCATCTTATTATTGTCTTAATTAGATTTAGGCAAATAATTTGATTCCTGATGTCCACGTAAACGTAGTCACTTATTCTCCCTCATGTGGTTTTAAACATTCATGAGATTCTTTATTCCGTTTAACATAAAAGAAGATATTTTGAAGAATGCTAGTTGAAGGCACCTATCAACTTCCATAGTAGGAAAAAGATTTGGAACTCAACAAGTGCCAGGTACTAGCATTTATTTTTTAAATATCTTCTTCTGTGTTCAACAGAAGAGGAAAAACCCAATAACGTCTGAAAACGTTAGGTGCGCCACACTTTTGCGCCAATTTGTTGGCTTTGGATAAGAGCAGCTTGCTGTGCTTTTTATGTCGCTAGGCAACTACTGTATTTATGGACTTTGTGCTGGAGCGTATGACATTGGGCACTTATTCCGCACAGAGTGATTACTTTTTTCACCTGCAGGTGTTGTTTTCAACTGCAAGTACTCCATAAAATGCACTCAGGGCACATAAACAGCGCAAAAAAGCATGCTGCCACTAGAAACCTTTTGAAAAAGCCACCTCTCAACAAAAAAAAATGATTTTGGTGTGATCAGGGCCTGAATGATGACAGAATTTTCACACATTTACCTGTAGTTTTATATCCTTGTTTCTAG
Seq C2 exon
CTCCATACTGTAACAGCATGATGAGGAACATGGAAGCCAGTCCCATCTCTCGAATGATCTGGAGAGCACTGAAACCTCTTCTTATGGGGAAGATTCTCTACACTCCACATAGCCCTGCAACACAGAAGATCATTCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079009:ENSDART00000051556:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GACCTGCGAAACGAGATCCTG
R:
TGATCTTCTGTGTTGCAGGGC
Band lengths:
349-2221
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]