DreINT0023706 @ danRer10
Intron Retention
Gene
ENSDARG00000062661 | abca4b
Description
ATP-binding cassette, sub-family A (ABC1), member 4b [Source:ZFIN;Acc:ZDB-GENE-050517-4]
Coordinates
chr2:15621943-15625423:+
Coord C1 exon
chr2:15621943-15622035
Coord A exon
chr2:15622036-15625173
Coord C2 exon
chr2:15625174-15625423
Length
3138 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTATTCTTGTAAATAAACAGGTT
3' ss Score
6.62
Exon sequences
Seq C1 exon
TATGGAAGAGTGTGAAGCTCTCTGTACTCGCTTGGCCATCATGGTCAATGGGACATTTAAGTGTCTGGGCACAATACAGCATCTGAAATACAA
Seq A exon
GTGAGTATATTTCCCTTTTATGTCAAAGTTATGTCAAAATACAGAACAAATGGTTGTTGATTCACTCAGGATTATGTGAGGGTTTATTCAATTTCTAAATAAAAGAAGGTCTGCGATAAACAAAACTTGATGATAATTTACATTTTAGTCTACAACATAAAAAAGAAACAAAAATAATAATAAAAAAGAATTTTATTTACAGATTTTATTTACTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTATTTTTGGCATAATATATATATTATGAAGAGTTCAGATGCACTTCCACAAAAAATGAGATAATGACATTAAGGGAATGCTTTAGGCACGTAGTACATGTTCATCAAATAGATTTGCTTCAAAACTTCTACGTCCCAGGGTCAGCTCATTCAAAAATAACAGTTGCCACTTGCCTGTGACAACAAAAGCAGCTATATCCAGAGAACCAATCAAAATGCGTGAATGCGGAAAAGAAAACACAATGTGCAGCTGGAAGTGTAGCATGCATTCTTAATGCTTTTTTTTTGCGTAGTGACTCTACATTGAATGAGTCTAATTTACTATACATTAAACTGCAACTACATTTCACGAAAGACAGAATTAGGATGCCGTTCTTTTATCCCACGTGGATGCTGTGAGGATAAACAAAGGACCAAGACCAAGTATGGTGAGAATGAATGTATGATAGCTTTTAAAATTGTCTGAGAGACATCCCCTTTTTGCCCAGTAGACCTAGCTTGTGTTTTATTTGCTAATTTAAGCTATATTTAAAAGATAAATAGAACGTATAAAATTATACATTATTTATATCACTTCATAATACCTATGCATCTGATAAGCTTTTTATATTAATGGACAATGCACAGATACTGATGTTTCATAATGTTTTACACTACATTATTTGAAAATAACTAGCTTAGTTTACAATGTTTACATTGCTCTACATACATTAAATCTAAATCCCAAGTATCAGAAATGACAACAGATTCTTAAGATTTAATTAATGTCAGCTATAATGATATTGATTAATGCACTTGACAGATTTCATTCATTTCCCTTCTGCTGTTTCCCTGGTTTATTACAGCGGAATGAACCGCCACTTAGTTGACAGATGTATTTTTAATTTTAGTTGGTTGTGTAATGTGTTTTATGTTTGGTAAAATAATTTATAATCACATCTTTAGTGATGTTCAACAAATACACTGTCTTGTCCTTATAGGTGGATTTAGAGGTTTTTGCAAAAACAGCAGAAGTGGATTTAGCTGGTTTTGATGCAAAAGAAAATCTACCTTGTTTAAAACCAAAGAATTTTTTAAAGTTACATTTTAAAAAAAAAGTTGTTTTATTTACTAGCTCATAACCTTATATTACATATAAAATGAAACTTCTAAACCTAATCAAAAAGCCTGATAGAAATTGCTCATTTACAAGAAAAGAGGTCAGATGGATTTACAGGGTTTTGCATCTGAACTCTTCATATATACTTTATGTATTTATGTATATATATATATATATATATATATATATATATATTAGTGGTGGGCCGTTATCAGCGTAATGTGGGACTTTTATCACGCAATAAAAAAATATTGCCGTTAATCTTTTGTCAAAGGTGGGTTGGGAGCTGGGTCTATTCCACTAAAGCTATGATGACTTTCACCTTGATATTTTAGCGCGGATGTATACCTGACTGGTGAGCAGTTCGGCAGTTTCACTTTAACTCATGAACATTTCATTTATGCCTTTTTGACAAACTGGGGTATTAGACGCAAATAAGGAGTAAGGACTGACGCACGCCAAATGAAATGAAAAAAGAAACTTCTGCATTTTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATCTGCGGTCGTTTACTGACAGCCACTTGTGTGGAGCGCTTGTCGGAAAATGCCAAAAAGTCCTACATGAGGGTAATAGTTTGATTGAGGTGTTTACATCAATAATGGCACTAATATCTGCATACTCCACGTCTAAATTCCATTTCTGTTTAGTTCAGTTATGACTTTAGTCAGATTAAGGTGATCAAAAATCGCTGTTTGGAGCTTATGTAGGCCTACATTTCAAAATTCATGTTTAACTGAATAAACAGTTAGTAAACACAAGTACATCTTATTGAACATAATTTATTTTCATCACCAATTATCATAGTAGAACAGTTTCTCAAGCAGTTTGTGATGCATTTTGGAAACAAGAGATGACCCTCTGGTCTAATGTGCCACCTGGCTTGAAAAACTCGTTCTCAAAGACGTATTGTTTGGGTAGCACACATATTCTGAATGCCTTCAGCAGAATTCAAATGAGCTATTTTAATCTAGATTATTCTAGATTCATTCCAAGATTAATCTAGATTATATATATATATATATATATATAATTGTCCATCATTAAAGGCACAGCATGTCATTTCTGACACCATGAATGAAAGTTGTGGTCTTCATTACATCCAATGGGACTCCTGCAGAAATGGTGTTTATTGGTCAAAGTATTCATCACAACTTGTTATCATAGTAGTATGAAGCAGAGTGAGCCCAAAGCCATCAAAGTGAAATGATACCACTAAAGTAATTGCAGACAAGAGAACAACACAATGCACAGAAACTTTTAAGCCAGAGTTCCCCATTTCTGATTCATCCGGTTATGACATAGGGAAGAAGCAGTGCTGTTTTATCATATAATAGTACATTTTAAGCTTCTGTTTTAATGCTGCTCTGTGCAGTCTGATAAAATACACAACATATTAAAGCGTCTTCTGTGTTTTTATTTTCTGCTTTCTATAAAAACCAAACTGGAAATCAAGACATTAGCATGGCAACGCAGTCCATCTCACTAGTTACAGTAAATTACTAAATTTGAACATTCTATAAAACATTTAGTATAATATAACTACTCAAGTCAGCAGAATATATAACACTGCTCTCATGTTCTCTGGTCAATTTTTAAATATTGTGCCTTTAAAATCTCACATTTCAAACATGATATTTAAAAGAACTTTTAGCAATGAAGTTGTCAACAAAACAAGTGCATTCTTAATTATTCTTGTAAATAAACAG
Seq C2 exon
GTTTGGAGGAGGCTATGTAGTGACAATGAAGATCAAAGCCGCAAAACCAGGCCTTTCTCCAGACCTGGTCCCGGCAGAGTCCTTCATGGACAGCAGTTTCCCAGGATGCATCCAGCGAGAGAAACACTACAACACGTTACAGTATGAAATCGCAGCTGCCTCGCTAGCACGGGTCTTCCAGCTAGTGTTGACCAACAAAGAAAGACTGAACATAGAGGATTACTCTGTGTCGCAGACTACATTAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062661:ENSDART00000144171:49
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:
NO
A:
NA
C2:
NO
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]