DreINT0129312 @ danRer10
Intron Retention
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21398459-21400006:+
Coord C1 exon
chr2:21398459-21398620
Coord A exon
chr2:21398621-21399247
Coord C2 exon
chr2:21399248-21400006
Length
627 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
AGCTCTTTTTGACTTTGTAGAAA
3' ss Score
7.07
Exon sequences
Seq C1 exon
GTCAGAAGCCGTACCCTTGTCCTCAGTGTGACTCGTTCTTCTCCACCAAGTCAAACTGTGAGCGACACCTGCTTCGCAAACATGGAGTCTCGAATCGGGCACTTCAAAACAGTGGATCTCGACTCAAACCTAAGACAGATGAAGAATCCTTAGGAAGCACAG
Seq A exon
GTATGATTGATTAGCCCCATTTTTATATTTTACAAATGTAGTGCTGATTGTCTTAAAGACACATTATGAATGATTTTTCATTAAAATATCAAAACCCCACTACAACATTATTATATATTTTGCTGACTTAGGATGTAACAAAAAAACGACAACTCCCATGATTCCACAATGAGGCCCAACATCATCAGAATACAGATTTCTTTGTTGTGAATATGCACCCTCTAATGCAGAGGAGGCCAAACTCAGTCTTGGAGGGCCGGTGTCCTGCAGAGGTTAGCTCCAACTTGCCTAAACACACCTGTCTGGACATTTCTAGTGCACAAAAGCTTGATTAGCTGGTTCAGGTGTGTCTGATTGGGGTTAGAGCTAAACTCTGCAAGACAATCCAGGCTAGAGTTTGGGCACCCCTGCTCTAGCGGTCTTTAAGTGTATAGCATTATTGATTCAATCAAGATTATGTTTCCTATCAAAATCTATATTAATTAAAATGTTGAGGCCTTTTCGTGCTTCAGATGTAATGCTTGGTATACTGTTCATCAACAACATCTTTCATCTATCACATTACTGTGTGGTTGAGCATACAAATTAGTGTGTGTAGAGCGTAACAAGCTCTTTTTGACTTTGTAG
Seq C2 exon
AAAGTGTATGCGACACTGAACATCCTGTAGCCGAAGGTACTATGGATCTGAGCTCTGTCAACACCAAACAAGAAGAATCTCCAGAAGCGCCAGAACGAACAGGACAATCAGCCCCTGAACAAGCAGACAGCAGCACGGATCCAAACCAAACTCAGCCAGCTGAGGAAAATCCTGAGATGGTGGAAAAAGATGATGATGATGATGATGATGATTCTCAAAGCAGCATGAGTCATGAAATGAGCCTTGTCAGCAATCTTGTTGTAGATGTCCAGCTTTCTGGAGAGGAGCAGCACCAGTCTAAATCAGCCCCTGAAGTGGTTTCCCCTCCAGATGAGTTCCCACACACATGTGCCTCCTGTAAGAAGACCTTTCGTCATGCAGCCACTCTGAGCCGACACCAGAAAACCCACCTTCAGGAGGTCCAGCCAGAGGATGGAGCCAAGAAGGGAAGACGCCAAGCTCCTCCACAAAATCCAATTCCAGTACCAAGTAAAGAGATGGAGCAGGACGCAAAGTCAGAAGATGATGAAAAGGAGGAGAACAGCAGCTGTGTGGAAAGTGGTGTTGATGAGGAAGAGAAGGAGAGGGAAGATATGAGTGAAGATGAAGAAGAGACTCCTTCCTCAGAGCTCCAGGCCTTAGAAGAGGAGGGCAACTCAACCAGAGGCAAAGCAGATAAGAGGAAGAAGATCTGCACCGTGTGCAGCAAACGCTTCTGGAGCCTGCAAGACTTGACTAGACACATGCGCTCACATACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652:ENSDART00000062563:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.727 A=NA C2=0.945
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(57.7=27.3)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=9.1),PF134651=zf-H2C2_2=PU(40.0=3.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGCACTTCAAAACAGTGGA
R:
CTGCTCCTCTCCAGAAAGCTG
Band lengths:
357-984
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]