DreINT0032311 @ danRer10
Intron Retention
Gene
ENSDARG00000026329 | arhgap29a
Description
Rho GTPase activating protein 29a [Source:ZFIN;Acc:ZDB-GENE-030131-9510]
Coordinates
chr24:28468833-28470765:+
Coord C1 exon
chr24:28468833-28468931
Coord A exon
chr24:28468932-28470601
Coord C2 exon
chr24:28470602-28470765
Length
1670 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CAGCGAATGTCGTCTCTTAGGTC
3' ss Score
5.69
Exon sequences
Seq C1 exon
GCGACTTTAAGAGAAGGCTTCCCAGGACCCCATCCACAGGCACCATGTCTTCAGCAGATGATCTGGACGAGAGAGAACCTCCGTCTCCTTCAGATAATG
Seq A exon
GTGAGATTTTTTTTTTTTTTTTTTAACACTTCTTCCAAACATGCTGTGTGACATTGCACACACAGCTTTTATTACTGTAACCCACAGACAATGTAGAGAATGCAGTCCGAGCATGTTGTAGGCTGCTGGCAGGCCCGGATTAAGAACTCAGGGGCCCCTGGGCACATTGTCTTGTAAGGCCCCCTACCACCCCTATAGTTGAATTTAAAAAATAAGAATAATTTAATAATTTTTAAATAAAATGAATCTATAATTTGTTGGCCACAAATTTAAATAAATGCTATATAGTACATATGTATTTATAGTCTACAAAGATTTAACTTATTTTTCAAAGCATTGAATAAAAATACTAATAAAACTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGGTATTTTAATGTATTGCTTTTACAAACTTATAAAGCATATTATTGCCATGGCATATAACGCACAATGCTTCTCCAATCCAGTTCTATGAATCTGAGTCTTTCATAATACAAACACTGATTTACTGTATCTCCTCCTCTCCCTGTATTTTCTCTACTCTTCTCGTGATGAAGACTTGATTATAAACCTAAAAGTATCCGAAATCACACACACCTCTTCTCTCCCGTCTCCCTCCTCTTTTGGGCCTTTCTCTCTCTCCCTCTCTCTCTCCTTTTCTGTCTGTCTCTCACACGATGAATCCAGTCCGCGCTGCGCTGCCGTTAGCCTCCTCCGACTGGTTAATGCTATCTCATCATTTAAAGTTACCATAACGTCTTCTTCTGTACCTCATTCTCCTGATCCAGGGTCTGTTTAAAGATGGTGTGTATGGAAAATGCCTCAATAAAGATGCCTCCTCTCCTCTTTCTCTCGCGTTTGCTAAATCCACTTGTCCACTCATTTTTGATCGATGACAGATATAACGTTACACTAAAGTCCGCTTAGTTTAGTGCGGGTTATTACAAAACTGACGTTTCCGCGCTTGACCAATTACAGCATTCTGTTTAGTTAAAGAAAAAAAGGCTGTTTAAATATAATAATAATATTAATGTGTGATCGCGATTTTTTTGCTCAGAGGAAATACAGTTGTCTGAGCAATATAGTTTTTGCAGAGAGGGAAGCACCTATAATAAGACTAAACATTATTAAATACCCACGAGACACTTGTGACTTTATATCACATTTCCATTATTTTTTAAAAATGTTTCCTTCCTGTTAAAAATAAATATATTTCCAATCTGATATGTAATGGGGAGAAAAAAAGTAGCACGAGTTCAGCTGATGGTGGATTCGAACCGAGTTTATAATTTATCGCGCCAAAAGACGAAACTGTGCGCCTTACAAGTGCGCCACTGCGGCTACAATATTTCACAGCTCTTCACTCATCTTGTCTCTATCAATCAGGCATCGATGGGCGTAAACCCTGAAAAGCTTATTCCAACTAGATGCGCTATTTGCAATTAGCCAAAAAAAGACACTCCGAAATTGTCCTTTTTTTCTCCCCCCTCGCAGGGGCCCCTAGTGCGCACGGGCCCCTGGGCCTGTGCCCATAATGCCCATTGGTTAATCCGGCCCTGGCTGCTGGTTACATTTGTCAAAGTCCAAAAAATGAAGGCAGCGAATGTCGTCTCTTAG
Seq C2 exon
GTCTGAGCGAAATGGTGACAGAGGCGGCCAGTTCTCCGGGACCTTTCCGCAACACACAGATGTCGAAAGCTGCACAGACGCACAAACTGAGGAAACTGAGGGCTCCATCAAAGTGCAGGGAGTGTGACAGTCTTGTGGTGTTTCATGGTGCTGAATGCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000026329:ENSDART00000154077:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.564
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(57.1=50.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGACTTTAAGAGAAGGCTTCCC
R:
CTCCTCGCATTCAGCACCATG
Band lengths:
263-1933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]