DreINT0078463 @ danRer10
Intron Retention
Gene
ENSDARG00000062049 | hmha1b
Description
histocompatibility (minor) HA-1 b [Source:ZFIN;Acc:ZDB-GENE-071213-2]
Coordinates
chr22:17589808-17592959:-
Coord C1 exon
chr22:17592721-17592959
Coord A exon
chr22:17590043-17592720
Coord C2 exon
chr22:17589808-17590042
Length
2678 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
CTTTTAATGTCTATTTTCAGGAT
3' ss Score
11.13
Exon sequences
Seq C1 exon
CTTCCGGAGCCCATCATGCCCTTCCGCCTCTACAACAGTCTCATGGGTCTGGCCAAGGAAAGTCTGGCTGTTGTGGGTCCAGAGGGAGCTGACAGTGGTAAAGGACCAGACCTGATGGACCTTGGACCTGAGACGGATCCTGAACTCTTGGTCCTCGTGGACAGACTTAAAAATCTCCTGAAAGAGCTGCCCAAACCAAACACCGCCACGCTCCGCTACCTAGCGCGTCATCTGAGGAG
Seq A exon
GTAAACTGGTCACACTTTACAATATGGTTTCATTAGTTTATGTTAATGCATCAATTAACATTAGTAAATGCATCAAACAACATTAACTAATACAAGATTTACTAATTTTCTCAATACAAACTTTTCTAAATGCTTTAAGCATATCATTTTTGCTAAATCTCTAATTGAGGTTTTGAATAATAATTTTAAAAATCTATAATAAAAGAAATGAATTAATAATAAATTGTTGAATAAAATAAACGCAAAGCAACTTAAGTGTTTGTCAAAGTATGTAAAAAATGTATCAAATTTTAATTAAAAATAATAAATTTGTCATAAATTCTTACTTTTAGGAAATGTACACTTTTAATACATTTTATATACACTCACTGGCCACTTTATTAGGTACACATTACTATTACCATGTTGGACGCTCTTTTGCCTTCAGAACTGCCTTAATCCTTCATGACATAGATTAAACAAGGTACTGCAAATATTGCTCAGAGATTTTGGTCCATATTGACATGATTTGATTGCTGCACATCCATGATGCAAATCTCCCGTTCCACCGCATCCCAAAGGTGCTCTATTTGATAGAGTTCTGGTGACTGTGGAGGCCATTTGAGTACAGTGAACTCAGTGTCATGTTTAAAAAACCAGTCTGAGATGGTTCACGCTTTATGATATGGCACGTTATCCTACTTGAAGTAGCCATCAGAAGATGGTTCCAATGTGGTCATAAAGGGATGGACATGGTTCGCAACAATACTCAGGTAGGCTGTGGCATTGACACAATGCTCAATTGGTACTAATGGGTGTAAAGTGTGCCAAGAAAATATCCCCCACACTATTACACTACCAGCCTGAACTGTTGATACAAGGCTGGATGGATCCATGGTTTCATGTTGTTGATGCCACATTCTAACCCAACCATACGAATGTTGCAGTAGAAATCGAGACTCATCAGACCTGGCAACGTTTTTCCAATCTTCTACTGTCCACTTTTGGTGAGCCTGTGTGAATTGTAGCCTCAGTTTCCTATTCTTAGCTGACAAGAGTGACACCCGGTGTGGTCTTCTGCTGCTTTAGCTCATCAGCCTCAAGGTTGGACGTGTTGTGTGTTAAGAGATGCATACCTCGAGCTACTATTGCCTTTCTATTGGCTTGAACCAGCCTGGCCATTCTCCTCTGACGTCTGGCATCAAAAAGGCTTTTGTGCCCACAGAACTGCCGCTCACTGGATATTTTCTCTTTTTCGGACCATTCTTTGTAAACCCTGGAGATGGTTGTTCATGAAACCCCCAGTTGATCAGCAGTTTCTGAAATACTGAGACCAGCCGGTCTGACACCAACATGAACATGTCATGTTCAAGGTCACTTAAATCACATTTCTTCCCCATTCTGATGCTCTGTTTGAACTGCCTAAATACATTAAGTTGGTGCCTTGTGATTGGCTCATTAGAAATTTGCACTAAGGAGCAGTTGGACAGGTGTAATTAATAAAGTGGCCAGTGAGTGTGTATTGAAGTAAATTTTTGGATGGTCACTAAAAAAATAAACAGAATAATTTTATAATGCAGAACAAATAGGCAAAATAATAGGAAATGTTTTTATTAATCAAAATAGTATATTTTTACATTTGCTAAATATATTTTTTATTCTGTGTATACATTTCATAATACATAAATGTATGAATTGACTGAATAAATAATTAGATTGAACAATTGACAAAATTTGTGTAAATTACATTATTTTAGATTGACTGTAATAAAATTAAAGATTTTTAAAAATATTTTTCTTTATTTGGTTCAGCTTAGGTCAGACATAAAATTATATCTCTGTAAAAACAAGACAAATAATATAGATTTATATACACATACACAATCATCAAAAAAACAAACACTAGTTCAATTCATCAAACAAGAAAGAATCAGAAAAAATATAATTATGCATTTAAAAATTTAGGTAAGCATCACAGGTAAAATGTCACATACATACACAACTGTATAATATACAGTGCTCAGCATATACAAGTACACCCCTAACAAATCTTTCTTTTAAATTTGTATTTTTAATAGGAAGCTGTACTGTATTATATTTGTGCATATACATTGGATTAGTCAGTACTGAAGCTAAATCTGGAGCTTGTCTAACAAAATAACTTACGATAACTGCCCAAAAACACACCCAAAATTACATCCAAATGTATATGTTATAAACTATTAACTAAAATATTAAATGCAATTTTTATAAAAAGGAGGAAAAATACAAGAGAAGAAAAAAAAGTTTAAAAATTAGTTGAAATTTTGTAGGTTGTAATTTATTTTTGCAATATTTTGCTTGAATTTAATTGTATTATCTTTCAATTTCTAAATATGTTTGGTGACCAAACTATTATTTTGATAAATATATCAGTTTTATAAATCTGTTTTGTCAAATGCATCAAAATACATTGACTATATCCACTGAGAAATGGAGAAATATATTCATTTTCAAAAGGAGGTGTACTCAATTATGCTGAGCACTCTATATAAACATTTTTAAAAAACTATAAACTGTACACAACCATAATAGATGTTAAAGAATGAATTGAGGAAATCCATTTTTAAACGTGATGATAAATAAATAATTATATATGAATAATTTATAGAAGAACAAATGCTCAGTTACTTGATTCAACTTTTAATGTCTATTTTCAG
Seq C2 exon
GATTGCAGAACTGGAAGACGACAATAAGATGAGTCCCAGTAATCTGGGGATCGTGTTTGGCCCGTCACTGATGCGGCCCCGGCCCTCGGGAGCCACAGTGTCTCTGTCCTCTCTGGTGGATTACCCATATCAGGCCCGCATAGTGGAGACCCTCATCGTGTTTTATCCCTCCATTTTTCAGTCAGAGTCCAGTCGGCCTGCAAGCAGCAGCACCCGCACACAGTCTCTACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062049:ENSDART00000132565:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.405
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(44.6=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(18.1=40.5)
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]