DreINT0078466 @ danRer10
Intron Retention
Gene
ENSDARG00000062049 | hmha1b
Description
histocompatibility (minor) HA-1 b [Source:ZFIN;Acc:ZDB-GENE-071213-2]
Coordinates
chr22:17603226-17606410:-
Coord C1 exon
chr22:17606349-17606410
Coord A exon
chr22:17603337-17606348
Coord C2 exon
chr22:17603226-17603336
Length
3012 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTGTTTGTTGGTGTTTTCAGCCA
3' ss Score
7.31
Exon sequences
Seq C1 exon
AGCTGGAGTTCTCCAAGGGTTTACAGAGGATCTATCAGTCGTGTAAACAGACCATCACACAG
Seq A exon
GTGAGATTTCAGCATGTTTACCTGCAACTGAATAGAATGCCAACTCAAACCGAACAAAAATCAGCTGACCTGTTGTTACCACTTAGGCCCTGATTAGATCACATAATTTTTATTGTCGGTTACGAAAGTCGCTGTCAGATTATGTGTGATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTGTTTATTTGTTTATTTATTTATTTATTTATTTTTCATCTTGAAATCTTGACTTGTCGTGGGTAACAAATGTGCCAGACTACACGTTCCTTCACGATCAGTCATTCTGTGACGTCTACAACGGACACTATTTCCCAAAGCAATCACAAGTGTTGCTGTAACAATATTCTTATTTTAATTTCAATGTTTTTTTTTTTCAAAAGCATGAATTTTCCTGAGGTTGTGTCGGTTTATTAAATAAAATAATTATATAACTTAAATAAAATTTAGGTGAAATTTTGACAGTTTCAGAGAAGCCTATATTCAACTGTTTTCACTATTAATGACAAATTTGAACAAGCAGAAAATGCTTTTGCAATGTATTTGCATCACTGAAAATGTTCCCAGATTACTTTGGAAAAACAGACTTGGAAGGATGAGGGAACTCAGTAACTCGAAGATGTGAATGAAGATGTCTGCATATTTGTGTCAGTCTTTCTGATAAAATTGCTTGAAACACCTTAATATTTTAGAAAAGATAGTTAAAGTTTTCATAACCAATGATTAATCTTATCCACCCATGACCAACCCACAAGTAAATATGCAGCCTATTTTTTTGATTACCTGACCAGCGCATTGTTTGCAGAATCCACTGATATAACCGAGAAGTTATGTGCTCCTATATTGCACAGTGTCACCTACGTGATGGAACTCATCATGAAGAACGAGAAAAAAATTACCCATGATAGACTTTCTGCAATGATGTCATGAGGCATTGCAGGCATGGAATCCGTTGTCGTGAACTATGGCACATCACACATAAAGAAACGATTGAATCTATTGTCACGATGTCCATTTGTCATGTACGTATCCCAACAACATTCTACGTCAAATAAATATTACTGAAATCGTGAAATTATCATGACCAGGGGCCTCATGTACGAAGACTTGCGTGGAAATCTTACTAAAACATTGCGTACACACAAAGCTGTAAATGTGCGTACGCAGAAAAAAATTCAGATGTATGAAACACTGCGTACGCCGAATCTCACGCATATTCTTTTGTACATCCGAATAAACGTGAAACTGAGCGCAACATGCACGAGCGCAAAACCCCTCCCTGCCTCCTCCCCCGTATGAATATGCTAATGACTATGCTAATGGCAAAACCCAACGAAGCAATGGCAAAAGCAAGCAAAAAGAGAAACTTTGAACAGAATGTGAAATGGAGGTGCTGCTTTCGGAGGTAGACCGGAGAAAAGCGGTGTTATTTGCAAGTTTGTTCTCCGGAATTAACAACAAAAGAAAAAAATAGAGTGGGAGAGTTTAGCTGATACGGTTAACACAGTTGGGTCTGAACATCGCACTGAGTGCATTAAAAAAGGAAATAGTGTGGTTTATATCTGTAAAATGTTGCAATACCCTTAGCAGTCTCTGTGGCGCACCTCGTAAGACGCATGTGATCATGAATTGACACGTTCGAGCACAAACTCGGCTCGAATCCAGCGTCTGATGAACTCTTTCTTCATTTTTCCCCCGCTACATATCAGATTTTGCCCACTATTTATCACGAGAAAGACAAGTAGGAATCATCAATAAGTTTGTGCATCATATTTTATTTGCACATTTATTAAATTGAAATGTTTCTGATTCACGCATGCAAATTCATCTTCAATTATTGTCTTTATAGCAATGTGCGTGCAGTAGATAGCTCAGATTGCATTTGGAAAACAGGCGACCGCTGCAAATTGTGCTTTAATGTTTACCTGGTCAACTGTATGGTATGGAAACCTTATGGAAATAAAACAGACACGCACAAAAAATGTGCGTACGCCAGCCAAAAAGCTGCCGTGAAGCTGCGCACATTCCCACGTTCAGTTCATTGTTAGTAAATCCAAACGTGAGCAATTCTGAGCGTGAAACCTGGCGTACGCAAAGTTTTTGTGCGTACGCAGCGTTGATACATGAGGCCCCAGGACTTTACATGCAAACCAATAACCCATGTTCAAAAGATTTAATTAACAATTTTTTTAAACTTGCGCAGAAGATGCGATTTGAGACAAGTTCTGCGCATTTGCATTAAACACATCGCACATTCTACGTCATTCGCACCATTTGGCTGACAAATAAAGAATCAATAGCAGCACAGAATCTGATTACTTATTCAGCATTACAGCTTCAAACCACTGCAGGGAAATGCTAAAACAGCTTTTTTTCTGCTTTTATTAAAAATAATAAGTTGTGGGTCTTGCATGTGGGTATCAAGTTTGTGCAGTCTGACAAATTACACTGCTAAAGGATTATTAAAAACCTGTTGCATCAAAGTAGGAAGGTCGCTGGTTCATGTTCTGGGTGGGTCAGTTGACATTTCTGTGTGGAGTTTGTATGTTCTCCCCGTGCTTCGTTTTCCCCTACAGTCCAAAGACATGCGCTATATGTGAATTGGAATGATCTAAATTGGCCTAATGTTTGTGTGTGAATGCGAGAGTGTATGGGTGTTTCCCAGTACTGGGTTGCGGCTGGAAGAGCATCCGCTTCGCTAAACGTATGCCAGAATAGTTGGCGGTTCATTCTGCTGTGGAGATCCCTGGTAAATAAGGGACTAAGCCTAAGGAAAATTAATGAATGAATTTATTGTCAGTTTATGAAACATAATCAGGGAGTGAATATGCAAGTTATTGTTGAGTCATGTAGTACTGAGTGTCTGTGTTTTGGTTGTGTCCTCATCTGTGTGTTTGTTGGTGTTTTCAG
Seq C2 exon
CCACACATGCCCTTCTTCACCATCTACTCTCAGGCACTGGAGCAGGATCTGGAGCAGAGCAATGGCATGCATCAGGCTGCCGCAACTCTACAGAACCAGACCTTTATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062049:ENSDART00000132565:2
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=0.216
Domain overlap (PFAM):
C1:
PF0061118=FCH=FE(22.0=100)
A:
NA
C2:
PF0061118=FCH=PD(35.2=86.5)
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]