DreINT0129313 @ danRer10
Intron Retention
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21399248-21404243:+
Coord C1 exon
chr2:21399248-21400006
Coord A exon
chr2:21400007-21401901
Coord C2 exon
chr2:21401902-21404243
Length
1895 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
AAATGACTTTTTTATTGTAGGTG
3' ss Score
7.65
Exon sequences
Seq C1 exon
AAAGTGTATGCGACACTGAACATCCTGTAGCCGAAGGTACTATGGATCTGAGCTCTGTCAACACCAAACAAGAAGAATCTCCAGAAGCGCCAGAACGAACAGGACAATCAGCCCCTGAACAAGCAGACAGCAGCACGGATCCAAACCAAACTCAGCCAGCTGAGGAAAATCCTGAGATGGTGGAAAAAGATGATGATGATGATGATGATGATTCTCAAAGCAGCATGAGTCATGAAATGAGCCTTGTCAGCAATCTTGTTGTAGATGTCCAGCTTTCTGGAGAGGAGCAGCACCAGTCTAAATCAGCCCCTGAAGTGGTTTCCCCTCCAGATGAGTTCCCACACACATGTGCCTCCTGTAAGAAGACCTTTCGTCATGCAGCCACTCTGAGCCGACACCAGAAAACCCACCTTCAGGAGGTCCAGCCAGAGGATGGAGCCAAGAAGGGAAGACGCCAAGCTCCTCCACAAAATCCAATTCCAGTACCAAGTAAAGAGATGGAGCAGGACGCAAAGTCAGAAGATGATGAAAAGGAGGAGAACAGCAGCTGTGTGGAAAGTGGTGTTGATGAGGAAGAGAAGGAGAGGGAAGATATGAGTGAAGATGAAGAAGAGACTCCTTCCTCAGAGCTCCAGGCCTTAGAAGAGGAGGGCAACTCAACCAGAGGCAAAGCAGATAAGAGGAAGAAGATCTGCACCGTGTGCAGCAAACGCTTCTGGAGCCTGCAAGACTTGACTAGACACATGCGCTCACATACTG
Seq A exon
GTAAGCACTGGAGCTTCTGAGGCCCTAAACTTATAAATGTGACCTCTTTGAATATTTGGATATTTTTGTATAGATATGCGCATATGTTGTCTGTCCAAATCTAATTATTTGAGTATCCCACAGGGTCAAGTTTGGAATTAATAGAATTATTTTACCAAGGATTTGTTTTTATGTGTTGTTATTATTATTTATTTAAATGCACAAAAGCGATTTTAGGTTTTAAATGTAAGTATATTATTCACGGGAATAAGAATCTGCACATGTTTATGCCGGGTAAAAAGCAAAAACCGTTACTAATGCATCATCAGAGGCCACAAAAAGTACAAAGGGCAAAGTACAAAACACAAAAGAAGAGCAAAAAAGTTTACAGCACACCACCTACAGACATGTACATATGAAAAAGTACAAAATGTTGTTTTCATGATTATATTGCATTTATAATCATAAAATCCATATCTACTTCATTGTCTGTGTATGACCAAAAAACAACTCAAAGACAATTCTTTATTCATTCCTAACGGACTTCCAAATGTAAGCATGTTTAATATTTCAGTTTTCTATTTGTCAATATTCCCTGTACAGAATCAACATTGAGTTTTATAGGCCACCGTTATGGCAGTAAACAAAAAGTGCAAGTTTTAAGAAAAACTGAGAACAAAAGCAAACTATGGGGGTACTCTCACCAGGGACAGATGCCTTAAACCGTGCCAAAGTGCGGTTGTTCCTCCCCTCTCCCCCAGCGGCCTGCACTCACTCTGCATCTTTACAATCCGAACCTTATGTCATCATGATGCGACTGTTCAGTTTAACAGGAAGAGAAGTGCTCTTGCTCAGCACAGAGGGGATTGTTTTTAGTTATATAATTTTAGTTGTTTGGGATCCAGTGACACACAGTCTAATATTTTGCTGAACAGATCCACAACTTTTGACGCTCATAAATTATTTTAAAAGTCATTGTGCTGCGCGTATTAAAAGGTTTGCTGAAGGTGCATCTGTTGTGCAGTGAGGGTTTTGTGTCTTTCATAAGCTATGACAGTTTGCGTTCATTGAAAAGTAAGAGGGATTTATAAAGCCATATGAAACAGTCCCTTAAAGTGACGTCACGTCTTCAGTTTCGGGCTCAGGTGCGCTTCGCACTCACACTACAAGCGTACCACAAAGTGTACCTACATAGCTTCACTGAACCGTGCTCTGGCACACCTCTTCCAACTGGGCCAGGGCCGGCCAACTGAACCATGCCTAGGCCCGATTCTGAACACTTGTCAAACAAACTAGGAAACGCACCCCGGCATAGTTTGGCACCCTAAATCTGCAAAAATAATAGATCGCAACATTAAAAAAAAGACATTTGCTGTTTGTTCAAACTACTTATTTAAAATGAGCTGAATCAGCACAATTCTTGAGAGTTTTCTTTGCAACAGCTTAATTGGTTTAGGTTCACTCCACTTAAATCTGTAAAATTCTTTCTTCGTTTACTCAGCTTTGACTTGTTCCAAACCATAATACCGCCATTGTAAAAACAAAATACCTTCATAAAAACAAAATAATTCTTCAAAAATACCTTCTTTTGTGTTCAACTGAACAAAAATATATAAACCAGACTGGTTTGGAACAAGGGTGACAAATTTTCATTTATACATGAACTATCCCTTTATAGGTGGACATTTTATTATTCATAACTTTGAACACAGACAATAGACAAAATAAAAATTTCCAGTCTTATTTTTCATCTGTAGAGAGGCTGATTGCTCACACAATCAAATGAAGTACACTTTTAAAATTTCTGTTCAACTATAACAGTTTGTATAAGGCTGCAATGTTAACAAAGCTTAATTGTCATTGTCATATAGGTTTAAATAATGGTTGATGGAACTAAAATGACTTTTTTATTGTAG
Seq C2 exon
GTGAGCGACCTTATAAGTGCCAAACCTGTCATCGTACCTTCACCCTGAAGCACAGTCTGGTACGGCACCAACGCGTCCACCAGAAACCATCGGATGAAAAAGGGAGCGATGACGCAGAAATGAACGAAGAAACAGATGGAGCAAAAGATGAAGCTGGAGTGCTGGAGGAGAAAGAGTTCAATGAAGCTGTTCAGAGTGAGGCTGAACACAAAGAGGAAGAGATTGGCGGACGCATGGAGGAAGACGATGCCAAGCAGCTTCCTGAAGAAACATCCATGGGGGTGAATTCTGCCGAAGAAGCTCTGCCGGATGAGGACGAACAGGAAGAACAACAAACCGAGGAACCGTCAGAAGAGGCCCGATCAGGCTGTGACCCAGAACCTGCAAAAACCAGCAACCACAGCTGTACAGTGGCTCAGGAAGACACAGAGATGCCCGCTCAGTGAATAGATCATTCACTGTCCATTTTGTGCCATAGTTTATCAAGCTTCCACAAACACTATGAGTGACAAAACCTGGCAATATGCTTTTTGTCTTACACAGTATGCATGAAAGAAGGACAGTTTTTGAAACCTTAATGCCTTTTTTCTTTCTTCTAAAGATCTGGATCAACACATAACTGGACAGTAGCTATTTTAATCCTATTTATATGATTTTTAATGAATCATATAAAGCCTTTATATCAATAAATTAGCATTTGTATGACGAACAGAAGATTTATATATCAGCATTAAATTGTGTTATTTTTAAATGAGTTCCTGTATGTTTTTAGTATCTGTATTTGACTTCAATATTTGTTTGAATTTTCTTTCTTTTTTTGTTGTCTTGAAGTGCCTGGCTAGTTTTCATTATCAAGATTGGCTGACTACATTATGCATCAAATTTTGTCATTTGTATTTTGCCTGATCATCAGCCAATCAAATTTCTTGGCAATATTTGCCTGTTCTTTGTATATTATCCTTCATCTTTGAGCCTCATTGTTGACAAATGATGCCCGACTCGACGTGTATAAATGGCTGGAAGTCTTGAAACAGCGCCGTCTGGTGGTGTGAAGTGTGAAGTATTATGTTAAACAAGGCTTTTGCGTTGGAAAAAAAAGTTGCGGTAGTATGTATTTAATGTCAGTGTGATTCAGACAACGTTTGATGTATCTTTAAAGCGTGATTAATGTTTGCCTTTTGGGGGGTTGTGTTTGTACTGGAAATTCAGTTTGACTTTAACACAGGTGTTCACACTAAAATTCAAAACACCTGTTAAGGAATCTAAAATACTAGAAGAAATATCCGTCTTCCATCAAACAAACTGTTTTACAACAGTGATTGCAATAAAGTGACTAATAAGGGCACTTGAATAACACACTTCATTTGCGATTGAGCAGATTTGACTGAAGTGAGCCTAAAATCGGCATTGTAAATGAACTGGTCTTTGCGTTTGTCGAGAAACACATTTACCTTTTTTTTTTTCTTTGTGTTATGATGTTTGTACTTCATACAAACGACAAGCATAAACACTGAACAATTTATGCAGGTATTTATTGACCAGTCTGAAGAGTGTGGTTATAATTTTGACAAGCCATGTAGAATCCAGTTTTTGCAAATCAAAAAAAAAGCTTGACCTTCATTGAGGTTCTTCTGTTGCTTTTTAGATACTTTGTACATTGAGAAACGTTAGGTTATTATATCGTTTGTGTGTCCTTTTATTTGTCTTCTAATGAAACTTTCAACCAATTCAAATATCCTTTGATTGGAGAGCATTGAATCACAGAGTATAATTCGGTGGGATTGACAGTATAATTAAAAAAATTATATATATATATATTACTTTTGCATGTTAATCTAATTTGAATTACTGAGTTATTCTCTTTCTCAGGGGCTTTTCAAAATCATCATATGTTTTCTATGTAAATAATCTGTCTGGTGTATAAAAAACCGAGCTCTGTTCTTTACACTACAGTTTAGAGCGTTTCACTGAATGTGGTCATATTTATGTTTAGGCTACCAAACCTTTTTTTCAAGTAGTCGTTATGTCATTAATCCAGATGTCCTCATCCATGTCAGGTGGATTACAAAAATCTGTCAGATCAATTCAGATGTAGACAACTTGTTGATTTTGCTTTTTCACCATGCTGTTCAACCCTGTAAAGTCAATATATCATCCAATCAATAAATGTACACTAAGAAAGAGTGAGAAATCAAGTTCTGTTTCTTTTTTCTCTCAACAATCTTCTCAATTAAAAACAAGTGTAAAAATGAGCAAAGTTTGGGTATTTTATTTTAGTTTATTAAGCTTTTTAAAAAGTCTGGTGCCAGTAAACAGGAGCCAATGGAAGCACTGGTTTATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652:ENSDART00000062563:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.945 A=NA C2=0.946
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=9.1),PF134651=zf-H2C2_2=PU(40.0=3.9)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(56.0=9.4)
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:
CTGGAGCCTGCAAGACTTGAC
R:
GCAGAGCTTCTTCGGCAGAAT
Band lengths:
350-2245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]