DreINT0129315 @ danRer10
Intron Retention
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21386290-21387313:+
Coord C1 exon
chr2:21386290-21386421
Coord A exon
chr2:21386422-21387107
Coord C2 exon
chr2:21387108-21387313
Length
686 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
AGTAATCATGTCATTCCCAGAAG
3' ss Score
3.81
Exon sequences
Seq C1 exon
AAATGGAAAGTGCCTCCCCTGAAAAGACTATCAGCAATGGTGTTGGAGCTGCTGATGGGAATGAACAGTCTCATTTGTCAGAAGAGGCTGTGAACAGTCAGTCGTCCACTTGTACACCAGAACCTGTTGAAG
Seq A exon
GTAAAATGCCACACTTACCCTGAAAGATTGTGCCTATAATTACTCACTCTCATGTTTTTCCACTACCAAAAGTTTTAATTTTCCAGAGAAATATGTTTTTTCATCCACTTTATTTTATGCACATGTTATGGTGTTGCATAAAAACACTGGATTGAAGCATCAAGAGGTGCAGAAATGAGCATAAAAATTGAGCTTAATTATAATTTGGATAAGTTTTATATATTAATAAGATACTGTATGTGCAAAACCGACGATGGAAAGACATTTGATGAGCATAAACAAATGTGGTTTTGCCTCAAAGGTTGAAATATTTGAATAACTAGGGTTGAAAAATGCTTCAAGAGCAAATCCTTTATGCAATTTTGAAATTTGGCGCATCTTAGAAAGGAAACAATTTTAGGCTTGTTCTACGTTGACATTTAGTGACTAAAAATAAAAATCAAACTGGAATATTATGAAAAATTAATGACATTTTAGTCTGCTCCTCCTCCTTGTATTAAGGTTTGCCGGTCATTCCGCAATAATTTTTGGTCCTGTTTTCCTTTTTTTCCCATCTAATTACTGATGAATGGCTCTAAAACAGGTGTAAACAAAACACAACATGGTTGATATTACTAGCTGTCATTGTGTTGAAAGCTTTAAAATATAAGAATGTCCTGTTTATTTAGTAATCATGTCATTCCCAG
Seq C2 exon
AAGCAGACTTTGATGAAACAGACAAAGCAGCAGATGAAGATGAAGTTGGCGTAAGAACAGAGGAGGAACTGACCTCCATCAACTCCATGATGAGCACTGTGATGAATGTGGGCCAGATCAATGGAGTCGATTCTGAGACCCCCAAAACATCTCCCAGAAACACCAACAAATCACCCTCTGCTGGACGCACTGGGAGACGGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652:ENSDART00000062563:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGAAAGTGCCTCCCCTGAA
R:
CTGATTCCGTCTCCCAGTGC
Band lengths:
336-1022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]