DreINT0041117 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26279295-26281279:-
Coord C1 exon
chr22:26281201-26281279
Coord A exon
chr22:26279409-26281200
Coord C2 exon
chr22:26279295-26279408
Length
1792 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
GCCTGTGTCCTTATCCTCAGGTT
3' ss Score
11
Exon sequences
Seq C1 exon
GGTGTCTTCAGACAGTTCGATCTGGATAAATCTGGAACTATGAGCTCCTACGAAATGCGCCTGGCTGTGGAGTCTGCAG
Seq A exon
GTGATCAATACTTTTTCATGCTCATCTCATGAAAATCTTTGGCTATGGTATGTTTTTAGTGTTTGAGATTACAGAGGCATATCTGTGTTATTTTCACTGTGATTCATAAGCTTTTAATTTGATACCAGTTTCAAACCAAACTTTAGAACCAGTTAAATTAAAATGAATTCCTAACTGACCAAGTAATTTTGTGTTTATTAAACATCTATAGTCGGCACCATTAGCCTATAGTCATGTGCTCACGGTGACCTGAGTTCAATTCCTAGCTCGAGGTCATTTCCCTCTCTTTCTGCTCCCCATTCATTACTAAATCCCTCTCCACTGCCCTATCAAATAAAGATTTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAAAATCACATTTAAAATAGTCCAAATTAAGCTCTTAGCAATGTACATTACTAATCAAAAATTAAGTTTTCATGTATTTACAGTAGAAAATTTACTGAGGCTCCGTTTACACTAGTGCGTTTTAGTTTTAAAACGGCGTTGTAGAATGAAAACGATCCGCGTCCACACTCGCGTTTTACCCAGCGTTTCTGAACTGCTCTCCGTCCACACCAAAACGCTGAAAACGCACACCACGTGACCACACACACACTCTCGGGCAAGCGCTCCAGCATTTCTACCCAGATGAGAGCTCTGCTTGTCGGACTGCTCATCAAGCATCTCCCGCTGGATCTAATCTCACTATATTTGCTGAATGTGATATTTCATTCATGTTGTTGTCTTTATCTAACGACATAGGCCAATTCCCTGACTTTGGTGATTGGAATCTATTAAGTTACTTGTTCACGGGTAACATGTTTTGGTTAAGCGCAAAGATAAGTTAATGATTAATCCAGGTATATTGACTGATCGCTTGCCTTTATTTCCTACAATGTATAAACTTATTGTATGTTATACTTTTATAATTATCGATTATTAAAACTGATACTCAGCAAAAGAGAGGGTGTGTTTCGTATTTTCACTGAAACTGAAAGGAGGCAGTTGTTATCGGCTTCGTTTTGTTATAAATATCCACACAAAAGATGACGCTCATATATGCAGCACGGCGCCTCAACATTTCTGCTGTCTGTTAAGTTGCTAATATTAAAAAGAAAATAGGCAGTTCCTTAAATCATGTTTATATTTTATTGTTAAAAAAGTGAAACAACGTAGCCAAGGTGATGTGAATGAAGTTATAAAGTACACTGTTCCCTTTGAAGATTTACCCGTGTCCTCGGTATGTTTTCCATATCAAACTGAGAAGGGGGAGACTGCAGCCTTGATCAAACTTGCGAAGTCTTAACTTACAAGAAAAGGATGCGAGACTGAACTGTGTGTGGGCTACTTAATATTGAGGAATAGCCCCAATTAGATAGGCGAACGTTTGCAGCCCCGCCTCCGTTTTCAGATGTCTCCGTCTTTCCCCATCCACACTGAGACGGAGCAGCAGCGTTTCAGAATGAAAACGGCCTCTCCAGCGTTTTCAAAAAGCTACGTTTTCGGCGCTCGAGAACTCCGGCGTAGTGTGGACGGATGGCGTAACCGTAGCAAAACTTATGCGTTTTCAAACTAAAACGCACTAGTGTAAACGGGGCCTGAATGTCTTCAAGGATCTTTTGTTTTGTTTTGTTTTGTCCAGTACAATCTACTTTTGGTTATTGTCAAAAATATACCAACCAACCCACAATGCATCTGCCTGTGTCCTTATCCTCAG
Seq C2 exon
GTTTTAAACTCAATAACAAGCTACATCAGATCCTGGTGGCCCGATATTCAGACGGAGATGTGATTGACTTCGACAACTTTGTCTGCTGCCTGGTTAAACTGGAGGCCATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:17
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:
PF0003627=EF-hand_1=PD(86.2=92.6)
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:
GTCTTCAGACAGTTCGATCTGGA
R:
TGAACATGGCCTCCAGTTTAACC
Band lengths:
190-1982
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]