DreINT0023698 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15615244-15617079:+
Coord C1 exon
chr2:15615244-15615367
Coord A exon
chr2:15615368-15616949
Coord C2 exon
chr2:15616950-15617079
Length
1582 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
CTTGATGCCTTTTGTCACAGGAG
3' ss Score
6.25
Exon sequences
Seq C1 exon
TCTCTGCTGATGTTTAATGAGGTGTTGAAGAAGGTGTTACTGGTGTTTCCTCACTTCTGTCTTGGCCGAGGTCTCATTGATATGGCCATGAACCAGGCTGTGACTGACGTTTATGCTCGATTTG
Seq A exon
GTAAGCTTTTAACAATACCAAAAAACATTAGATCATTTGTTGTTTAAAATCCATGGCCTTGATTGCTAGTCATTTTAATGTAATTTCTAACAGTAATCAGGCATGTCTTTTGAAAATTAAGCTTGTACATAAACAAAAAGATATATGTATACATAAATATTCAAATATTTAAAGTTTTTGGTCCCACTTTATATTAAGTGGCCTTAACTAATATGTACTTACATAGGAATTAATCGCTTGTTACAATGTACTTATTGTGTATATACATGTATTTACTGTGTACTTATGCTTGATTAAATACATGTATGTAGTTACATCTGTAATTAACTTTTGTAATTACATTTGTAAAAACACTGTTGACCATCCCTTACACCTTAACCCACCCTTAAACCTACCCATGCCACTAAACCTGTCCATAACCCAACCTCTATCCCAACTCAAAAGCACCACAAGTGTTCTCAAATACTTTATAAACACAGTAAGTACATTGTATTTATTTTCTGATGTAAGTACATAGTAATTAAGGACACTTAATATGAAGTGGGACCAAGTTTTTTTTGAAAAACAAAGGCCTTCCATGATTAAATCTAGACAAGTAGGTTTTTAAATGAATATTTTTGCCAGGAAAATTATGAGACGTACAACACCAGAATTACTTTCAGTCTCTTGTATGTGCAAACATTAGTGTTAAATTGCTGGGTGCAGTTTACCTAACAGTGTAGTACACCTAAACAAAAAAATTCTGTCATCATTTAGTTAAGCTCAACCTGTCCCAGACCTTTTTGAGTTATTTTTTTTCTGTTAACCAAAAAAAATTTTTAAATGCTGAACATCTTCCCTAGAATTTATTTTTCCCACTATGGAAGTAAATGGTTACAGGTTTCTAACATTTTTAAAAGTAGCTTTTTTGTGTTCAACGGGAAAGGGAAATTCATAAAGGTATGAAACAATTTGAGGGAGACTAAAAGGTGAGTAAATTTTTATTTGAGCCATCCCTTTAAACCATAGGTCTCAAACTTGGAGCAAATCAGTGCAGATCTGCAGCCCTTCAGGAGGTGAGTTTGAGACCTATGATTTAAAGAGATAGTTCACCCAAAAATGAAAACTAGCTCATCATTTAGTTTCCTTCATGTAGTTTTAAACATATTTGAGGTTCTGTCTTCTGTTGAGCACAAAAGAAAATACTTTAAAGAAAAAGTATTTTGCTGATACCTATCGACCTCCACAATGAAATCTACGGAAGTCAATGGGAACATGCTACCAGCATTTTTTAAAATATCTTTTTATTTTTAACATAAGACAAATATGCAAATATGTTTGGAACAAGTAAAAGATGAGTAAACGATGGCAGTATTTTCCTTTTTGTTGAACTATCCATTTAACAACCATCAGTAATGCTAATAGCAATGCTTTTTGAATTCTTCATGAAGAACCTTTTATACTGAACAAAATTGTAACACTTAGCAAAGATTGCTAATATGCATTTATCATGTAGTATCTCAAATGTCATAAGATGTGAGCCAGAACTGCCACTACTGCTCCTTTAAAAGGGATCCTAATTGCTTGATGCCTTTTGTCACAG
Seq C2 exon
GAGAGGAGTTTTCCATGGATCCGTTCAGATGGAACTTTGTGGGGAAGAATCTCTTCTGTATGGCTGTGGAGGGTTTTGTCTATTTCATTTTTAACCTCCTCATCCAGTACAAATTTTTCCTTCATCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:41
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(10.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(8.6=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTGCTGATGTTTAATGAGGTGT
R:
CAGTGATGAAGGAAAAATTTGTACTG
Band lengths:
254-1836
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]