DreINT0129311 @ danRer10
Intron Retention
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21395360-21398620:+
Coord C1 exon
chr2:21395360-21397940
Coord A exon
chr2:21397941-21398458
Coord C2 exon
chr2:21398459-21398620
Length
518 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTGTGCATTGATTTTGTAGGTC
3' ss Score
8.86
Exon sequences
Seq C1 exon
GTCTGGTGTGAGACTAACCTGCGCCGATGCTCTAGCAAGTTCCATAAGTTTGTTTGTGAGGACTGCAACAAGGCCTTCCCTATTCAGCAATCTCTGGATCTTCACAAGTCTTCACATAACTGTAGTGTAGACACCAGCACTGATCCTCAGGAACATAAAGCAGATGCTGTTATAGACGCCCCAAAAGTAAACTCCCATTCCGAGGATTCCAAGGAGGTCAGTGAACTAGCACCACACGTTGACACTACTAGTTCAGATGGGAAGAATGGTTTCATGGAGCGCCTGGGTCTCCAGCACTCCTCCTTGGCCAAGCTAGAGAAATCAGAAGAGCAGATTCAGCAGGAGGTTTTAGACAGCATTCGATTCATTCGCGTTGAGCCACCATCAACAAATCTACCTCAAGAAACCAGCGGCAGTCTTGGTGTCTCAATCCTTGAGCCTGTCTCTCTTCAAGCAATGAACAAGAACACAGCCCTTGGCCTTCTATCGCTACAGCCACTACATGCTGTGGTCAGTAATGGCATGTTTGTCCCAATAAGCGGTCAAACCGCTGTAGAGCTGGCGGATATTGAACAAATCCTTAAAATCGCAACCTCTGTACCACCTCAGATGTCTTTGTCTATGCTTCCCAAAAGTCTGGGTAGTCCTCTTCAAGTGGACCCCAGACAGATTTCTTCTTTAAAACCCAAGTCCTTAATCACTCCCCGATCCAGCATGGGTGCCTCCACACCACCTCCACCTGTCATGAATGCCCAACAGGCCTCATCCGGCAACATCAGTCCTAGCCTTCCACCCCAAACAGGCCAACAAGTGAGAACTGCCAGACAGTCTTCAGCCTCATCCTCATCCTCAACTTCCTCCTCTCCCACCAATTGGGAAACTACTCAACTGGGATCTGATGTCATAGGAAACACGATTATCTCATATGAAACTGGAAAGCAGGAAGAGTTTGACAGCAAAGAGAAGGACATGAGAGTTGTCCCCAAAAAGACAGCTAAGACTGAATACCCTTGTCGGTTCTGCAAAGAAGTATTCTCTTTCTTAGGTGGCCTCCAGGCACATATGCGTCACCATTTGGGAGCATCCCCATATCAGTGCACCATTTGTAGCTACGCTGCTCCTGACAAAGCGACACTGATTCGACATCTCAGAACACACAGTGGTGAGCGGCCATACGTCTGTCGCCTCTGTCACTACCCTTTCACTGTGAAAGCCAACTGCGAGCGCCATTTGCGCAAGAAGCACATGAAGAACACACGCAAGGACATCGAGAAAAACATTGAATATGTAACCACCTCCTCGAGCATAAGCAGTGTAATTGGAGGCACCACACTAGACCTCCTTGATACAACCAACGCTGGCAACACATCTTGTCGATATTGTGGGGAGGACCTTAAGAACTACCGGGCCCTTCAGATTCACCTGCGAACTCACAATGGATGTCAAAAGAAACCATTTGAGTGCAGGCAATGTGGGGCGACATTTCTCGCTAAAAGGAACTGTATTCACCATTTGCTGAAACACCACCCAGATGTGCCAGAAAGGGAAATTGAGGAGCACATCAAAAGTCTTGTACCAGTTGGAGGTGAAGTCAATGCTCAATCCAACACTTCAGCCACAAATGGGCTTGTTAACAGCTCCATTTCCCAGAATGTAGGTACCTTCTCTGGACCTGTTGAGGAGCAGGAACAACCTTTGGATTTCTCTAGCAAATCTCAGAAAACAATGCCTTCAGTCGTTAAAATTGAAGGAGCAGCATCTCCTCTGTTAAATGACTGTTCTATGGAGCCCATTGACCTCTCAATACCCAAGGATCCAGAGAAGAAGAAAATGAGGAAAGAAGTTCCCCAGAATTATCAAGAGCTCAATAAAGAAAAGACTTCAGAAACAGCCCCTGGACTTCTCGCAGCTATTCCGGTCTCCATTCCTAGCCTAGCCTCAGTTCTATCCAGTGACATTACTAAGCCTTATACTCGCTTAAAGCCCCTGCTACCAAAACCATCTTCTGCTTCTAGTACTGCGGAAATGGCACCACTGGCCTCTATTGCTCAGATTATCTCATCTGTTTCAGCTACCCCAGTGCTTATCGAAACAGGAATGGATGCAAAAAACTGTATTAGTGCAGTGGATTTTAAAACACTAAGTGAAAACAAGAGTCCCATAGGCACCACTAAACTGGATTCCGTGCTGAATGGGTCTCCTGATAACTCAAAGAAAAGAGGCAAGAAGAGAGTGTTTCAGGAGGAGATCTGTGATTCGAGAATAGCTGTGGGCAGTGGGATTGACCTGGAGTCAAGTGGCGAGTTTCCCAGTGTAGAGAAAATGTTGGCTACTACTGATGCAAATAAGTTCAGTCCCTACCTGCAACCCAATCAGATGGAGCCAATGATGGAGGAAAAAGAGAAGCAGTCAGCTGACGAGGAGGTGAAGGAAATACGAGAAGACAAACCAAAGAAACCTCCACAGAACAAAGGAAAGAAAAATGCTTATTCCAATTCAGTGCAGAAAATGACCTGCCCCTACTGCCCTCGATTGTTCCCGTGGGCCAGCTCATTGCAAAGGCATATGCTAACACACACAG
Seq A exon
GTGAGACGGAGTTTGAGGTTTGTAAATTATGACCATGACCCATAAAGCCATTTATTCACATTTTTATTTAATCTTTCCTACTATGCAGTGAGCAAAACAACTGGCCTAGGAATTTTACATTTTAGTAATTTAAAGTAAAATTACATTTTTACATTCTAGAATTGGTTCAGATGAGTTTGATCAGGGTTGGAGCTGAACTCTGCAGGAAGGTAGATCTCCTGGAACAGGGTTGACCAACCTTTTCTTATTGAGCACTTAACAACATTAAAATAAGCATAGGTGCCAGTAGCCAAGTGGGAAAGTTCAAGTCCCAACTCGAGGACCTTTTCCAATCTCACTCACTCTCTCTACCTGTCATCACATTGTCCTGGCAAAATCAAGACAAAAATGTACCCTTGAAAATTTTATCTTTACAAATAAGCATTTTTGACCAATTTTGATGTTATTGTGCAACCCTAGTAACTTTTAACACTTTTAAAATACTTCAGATGTTAAAGTTTTGTGCATTGATTTTGTAG
Seq C2 exon
GTCAGAAGCCGTACCCTTGTCCTCAGTGTGACTCGTTCTTCTCCACCAAGTCAAACTGTGAGCGACACCTGCTTCGCAAACATGGAGTCTCGAATCGGGCACTTCAAAACAGTGGATCTCGACTCAAACCTAAGACAGATGAAGAATCCTTAGGAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652:ENSDART00000062563:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.460 A=NA C2=0.727
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=2.7),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=3.0),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=PU(38.5=1.2)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=27.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGAATAGCTGTGGGCAGTG
R:
AGTCACACTGAGGACAAGGGT
Band lengths:
357-875
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]