DreINT0052814 @ danRer10
Intron Retention
Gene
ENSDARG00000038429 | csrnp1b
Description
cysteine-serine-rich nuclear protein 1b [Source:ZFIN;Acc:ZDB-GENE-030131-1515]
Coordinates
chr24:19563190-19564609:-
Coord C1 exon
chr24:19564313-19564609
Coord A exon
chr24:19564199-19564312
Coord C2 exon
chr24:19563190-19564198
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATTATTCTTTGGCTTCACAGATG
3' ss Score
8.6
Exon sequences
Seq C1 exon
CTCACCAAAAACGGTACCCAAGAGTCTGAAGAAGCTGAAAAGTTAACTGTCGATGATATCCCAGAGGATGAAATTGACCTCAGTGGAGTAAATGTGGATGACGGCTCCTTCCTGCATCCATACCCCTCAAAGAAAAGGTACGCCATCCTTAAAGCTGCTGGTGTGAAGAAAATCGATAGAGAAGAGAAACGTCAACTTCATGAGCTGCGGACATCGAGAGAAGACTGCGGATGTGACTGTCAAGGCTTCTGTGAGCCAGAGACCTGCAGCTGTAGTTTGGCTGGGATCAAATGTCAG
Seq A exon
GTAAGCAATTCCCAACAGACTTCTTTGAGAACATCACTTACCAAGTTTGTGGGTAATATTCACAAGTATCATCCATGACAGCAGAAAGTAACGCATTATTCTTTGGCTTCACAG
Seq C2 exon
ATGGACCACTCATCCTTCCCATGTGGCTGCACTAAAGATGGCTGTGGGAACACACAAGGTCGCATCGAGTTCAACTCTAGCCGAGTTCATACCCACTACATCCACACTATCATGAAGCTGGAGCTGGAAAAACGCTTGGAGGAGCACACGACAGAGACGCCTCCTGAAACTCATCCAGACAGCAGTTCCCTAAACCAACCAGCAGAGATCAGCAGCACGCCAGACATGCCAACATTTCACTTTAACTCAGAGCTACTATCCACAGGAGAGAACAGCTGCAGCAGTGACATGACCGATTCGTCTAGTTCCTCAGGCCAGAGCGAGGATTCTGAATCTGTTGAAAATGTTCCAAGTGAACAGTCGCCGCTGGACGTTGACGAAAACGGACTTACAAGAATCCTAAGCTTTAGCGACACAGACAATGAAGACTGTTCTATCAGGGAGCGCAATGACAACTGTGACTACCAACAGAAAAAGAGCGAAGGGTCGATGGGTTATGGCATCTTCAGTACAGAGGACGACAAGCTCAACATGTCACAAACAGACAACAGTCGCACAGCCATGTCTGAACTTTTAGACGAGAACGCTAATCAAGGTAACGGACTATTCCACAGCAGCTTCATCCCACATACGCCCTCGCCTTCCATCGATCATTCGGCCAGCTACATGGACCTTAGCCTGTCATCCGAGTCAGACTTAGAATTCTTTGATGGATTTCCTTGTTTGGGACCGAGCTCGCTATACAACTCCCTAAAGGAGTATGAGCACGTGGACAACTTCTTTCAGTTCCAGTTGCCTACCTACCCCAGCCTTCCTCAAGCTGTCGACCCAGGAACATGTCTCCTGGAGTCTCTGATCGGCTTGTCAGATTCTGTCCCAGAACCTCCGACTACTTTCACGGACAATCAAATGCTAGAAGATGCCATGAAGCTGTCAGTGATGGAGTCTTTAAAGGTCTAATGGGGGACTCTTGTATGATCACTGTATAAATGAACTATGGGATTGTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038429:ENSDART00000109107:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.597
Domain overlap (PFAM):
C1:
NO
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:
TCAACTTCATGAGCTGCGGAC
R:
TGTGCTCCTCCAAGCGTTTTT
Band lengths:
254-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]