DreINT0178444 @ danRer10
Intron Retention
Gene
ENSDARG00000039730 | zgc:112160
Description
zgc:112160 [Source:ZFIN;Acc:ZDB-GENE-050417-229]
Coordinates
chr7:34791678-34793019:-
Coord C1 exon
chr7:34792839-34793019
Coord A exon
chr7:34791812-34792838
Coord C2 exon
chr7:34791678-34791811
Length
1027 bp
Sequences
Splice sites
5' ss Seq
ATGGTTGGT
5' ss Score
5.29
3' ss Seq
GTCTTTCTCTCTCCCTGTAGCTC
3' ss Score
12.43
Exon sequences
Seq C1 exon
GTGTTCACCCATCCTCAGTATAACTCTAACACCATTGAGAATGACATTGCTCTGGTCAAGCTGACTGCACCAGCCTCTCTGAATGCCCATGTGTCCCCTGTTTGCCTGGCTGAGGCTTCAGATAACTTTGCCTCTGGCATGACCTGTGTGACTTCTGGATGGGGTGTGACCAGATACAATG
Seq A exon
GTTGGTTAATTCACTCATATAAAATCATAGTTCATAATACACGCATACAGTAGCCAAGAAATATCAACAGCACATTATTATCTTATTGAACTGATATTCATTATTTTAATGATCCTAACATTTTATGCCATTAATATATAGGGGAAAAAATAATGCACTCTCTGGATTTATTGATTTTGAGCGAAATGTTAATATTTGTTTTATGCTATAAAGGTTTAATAATGTTACGAATAAATCATTTACAGCTTTTATTTTAGAAAATTTGAAGTTGGCAAAATATCAAATAGGTGATTTTGAGGGTTATTCCGTCAAATATGGACTTTTTAACTCTTCTGAACTTAAAACAAGGGTAAAACCAAGTATAAGTTTGACTACAAATATAGCAAAACACTGTAAATATAGTGTTTTATATTTAACTTGAAAGAAATGTAACCAGTAATATACAGAATAAAACAATTTTCCTCAAACACATAACTATAAATTGTAAATCCGGAGAACTGGTACTTCAAAGTGGCCTCTTCATCTTTTCCAGAGCTACTACATTATAAATAGCCAACTTGTCAAAAGTATTGGGTAAGATTTTTATAATCCCTTTGAAACTCAAAGAAAAATGAAACAGGAAAAAAGTCTCATAATAGTCTGAAATATTATTGCACTTTAAAAAATGTGCTAAAATATTGTTTACCTCTGTGATGGAATGTTGAATGAAGATAATGAACAGACAATGAACAGAACATAGATGATGAAATGAAAGATAAATGAACTATTTTTGTGAAGACTGGTACTCTTTTTCAATATTTTCTAATAAAAGGAAAGTTCAAAAGAAAAAGTATTTATTTAAAATATAACACAGCACTTTTACCCGTCATGGCTGAGCAATTTAAGACCCACTGAACAGAAGTGCTAATTGCTTTTAAAAATATCAGCTACTAACCACAACATTTTGTGATGTTATTGCGTCAGTGTGTGTGATTTATTTGCAATACTAAACATCTTTTATGATTGCTGTCTTTCTCTCTCCCTGTAG
Seq C2 exon
CTCTGTTCACCCCTGATGAGCTCCAGCAGGTCGCTCTTCCACTGTTGTCCAATGAAGATTGCAAGAACCACTGGGGAAGCAACATCCGGGACACCATGATTTGCGCAGGTGCTGCTGGTGCCTCCTCCTGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039730:ENSDART00000058067:5
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:
PF0008921=Trypsin=FE(26.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCACCCATCCTCAGTAT
R:
ATGCAGGAGGAGGCACCAG
Band lengths:
314-1341
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]