DreINT0177804 @ danRer10
Intron Retention
Gene
ENSDARG00000013207 | zeb1b
Description
zinc finger E-box binding homeobox 1b [Source:ZFIN;Acc:ZDB-GENE-010621-1]
Coordinates
chr12:26666819-26669101:-
Coord C1 exon
chr12:26668990-26669101
Coord A exon
chr12:26668504-26668989
Coord C2 exon
chr12:26666819-26668503
Length
486 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
GTTCATTTTGTGTTGTGCAGGAG
3' ss Score
7.2
Exon sequences
Seq C1 exon
CGGCATGTTACTCAGTCAGGTGGAGGAGGGAATCGAAAGTTTAAATGCACTGAATGTGGCAAAGCCTTCAAGTACAAACACCACCTGAAAGAACACCTGCGCATCCACAGTG
Seq A exon
GTGAGGACTGCTCGAAATTTGCTAGAGTAGTGTATGTTGAATCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGCAAGCATGCATATACTGTATGTGTGCAGTTGTTTACTTCATTGTACCAAAATTTTAGGCCAATTCGGCATTCAACTACTTCAAAGAACTTCAAGTACTTACTGTCAAAGGCTTCTTAAGAGTTTTTCATCTAAATACTGCACACTTTTATGGGTTTTACTTATTGGAAGGAAAAAAAATGCTTTTTCTGTGTCGTAGTTTCTTCTGAGGACTGCCTATTATATTTCTACATTTATTTGATTATTAAAAAAACTGTTATAAAAATGTTCTGAACAGTGAAACAATAGAGTTAAGTTGAAATACATCAAGTGTTGGTTCATCTGTTCATTTTGTGTTGTGCAG
Seq C2 exon
GAGAAAAGCCTTATGAATGCTCCAACTGCAAGAAGCGTTTCTCTCATTCCGGTTCCTACAGTTCCCACATAAGCAGTAAGAAGTGCATTGGTCTCATCTCAGTAAATGGACGACCACGACCTTCTCCTGCTACAGGGGCTGCCAAGACCCCGCAGTGCTCTTCCCCGTCCCTGCCAACCTCCTCCCCTACAGCACGAGTCCAAGTAAGAGACAAACTGGATAACAGCAAACCCCTTCAAGAGCAGCTTCCCTTGACACAGATCAAGTCTGAGCCGCTGGACTATGAGTACAAGCCTGTGGTAGTGGCCCCATCTGCTAGAGGCGTAAATGGCATGTTTCAGGGTGGGGCAGCAGCCCCTCTCCAGGGTGCCGTACAGGCTGTTGTGCTTCCAACTGTGGGACTGGTGTCCCCAATCAGCATCAATCTGGGGGACTTACAAAACGTGCTAAAGGTGGCAGTGGATGGGAATGTCATTAGGCAAGTGCTGGAAAGCACACAAGCTAAGGGGCAACAAGCAGGGACGGGGATTGTAGGAGCAGGAGGGATTGCCCAAGCTACCCAGCAAGTTATCCAAGCCATTAGTCTTCCTATCTTGGATCAGGATGGCAATGCTAAAATCTTCATCAACTATAGTCTGGACCCATCCCAAGCCCAAGCAGTCCTTCAAAGTCCAAAAAAGGAACCATTGGGGTCGAACACTGAGGTCTGCAAGGGTCAGAAGCTGCCTGAGGACCTTACAGTAAAGACAAATAGGGACAAAACCACCCTCACTGTGGATGAGAAGAGCATGTTACACAATGACATATTACTTAAGCACTGTGGTAAAGATGAACATAGGATTAACGGGAAAAATCTTGAGGAGAAGATGGACTTGGAAGGACTGTGTCCTGGTCAGCCTCCTCTGAAGAACCTTCTCTCCTTGCTCAAGGCTTACTTTGCCTTAAACAATGAACCCACTAAGGAGGAGCTGGCAAAGATATCGGAGTCTGTCAGTCTTCCAGCAGAGGTGGTGAAAAAGTGGTTTGAGAAGATGCAGCTGGGACAGATCTCCATAGACCCTTCTTCACCTCAGCATGAGGAGGAGCAAACCACTCCTGTGGATTTGGATGGTACTAAAGGTGCATCACCCAAACCAGACTTAGATGAGCAAATTAACTCAGAGAAGCAAGAGGAGAGGGAGTGCTGTAGCCCAGCGGAGGGCATTGCAGCCAGTGTGAATGGAATCGAGAGTGTCCCTGCATCCCCTTCACCACTAAACCTATCGGCTGATGGTCCTGTCCCAGCCAGGACTCTTGAGGAAGGCGAGGGACCTCTCGATCTGTCGCTACCAAAATCCGCTACTACAGCCTCTGTGGCTAGCGGTCATGCTAACACTGTTTACTCGGCTCAAGAGGAGCCGCTGAATTTGACTTGCACAAAGAAGGAACTGCTCAGTAATGCAAGCACCAATGCTGCCATATATGCCAGCCAACCAAGTGCCAATCCCATAAACATCATGACCACTCAACTGCCCACCCTAGTGGCTATCACTGACCAGGGACAGGCGCAATGTCTACGTGCACTTACCACCACTAAACAGACCATCCTGATCCCGCAGCTGACTTACAGTTATACCACTACATCCTCCAGCCCGGCAGGGACCGACACACCACAGAAGAACATTTTACATGTCAATGGCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013207:ENSDART00000047724:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.463
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(38.5=26.3)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=2.7),PF0004624=Homeobox=WD(100=8.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCAGGTGGAGGAGGGAAT
R:
TGCTCTTGAAGGGGTTTGCTG
Band lengths:
344-830
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]