DreINT0180806 @ danRer10
Intron Retention
Gene
ENSDARG00000040513 | zgc:92313
Description
zgc:92313 [Source:ZFIN;Acc:ZDB-GENE-040718-339]
Coordinates
chr12:4204693-4206503:-
Coord C1 exon
chr12:4206343-4206503
Coord A exon
chr12:4205382-4206342
Coord C2 exon
chr12:4204693-4205381
Length
961 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGCATGTTGCTTTTTTCAGGGT
3' ss Score
9.34
Exon sequences
Seq C1 exon
TTGCTCTGCAGGGTGTCGGGCCGCTGCAGGAGGTCCAGGTGCCCATCATCGACTCTCAGATTTGTCAGGATATGTTTTTGACAAACCCCACAGAGAACATTGACATCCGGCTGGACATGATGTGTGCAGGTTTCCAGCAGGGGGGCAAAGACTCCTGCCAG
Seq A exon
GTGAGGAGAGAATAAAATGTATATGGCGTTAAAGAATGCTTCTATCTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTAATTTTGTTTATTTAATTTAATAATTTTATATTTTCAGTATTTTTTTAAGGAATTCATTTTATTACATTTTCTAAAATCTTGTTTAATTTTTAGTGAAATGTGTATTGTACCTAGTGATATGCCCAGCATTAGTAACACTTTAATTAATAAGACTCCATTAGGGATGGGTGATTTTATTGTAAACAAAAATTATCACAATATCATGTTTCATATAATTTGGTATCAATATTTATTGAATTTTTTTTAACAATCCATTTAGAAATATTAGGATTTTTTTTATTTATTTAACCACTTTATTTTAATTTACCAACATTACTAAGGCAAATAGTTTTAAAAGTGAAAAACATAAATGTATAAATAAAATTTCTGAGCTCTTTATAACAGAATAAACAAAAGTGTTAAAGAGACTCTTAAACTTGATTAATAAGATGTTACAAAGTGTGTGCAATGGTAAAGTGCAACCGCTGAACAATCAAAGCTAACTTTAAGGTGTGGATAATAATACAGTAAACCTCAAACTCTGTAAACAACACAAATTATGATAATCAAATCTTAACTTTCAAGTAATGGAACCAGCCATCATTATTCAAATACACACTAAAATATTAATATTGTTATTATGAGATTTTTCCAATATTGTGCAGCCCTAATGCTAATGCAATACACCAACAGGTATAATAACAAAACAAAAAAACTTTAAACTTTTTTTTCTTTTGTGCAGTTTTTAAATATCGTGGCTTCAGCAAATTATTTTCAATAACACAATTTGATGCCATTAGAAGCTTATAAAACTCTACATGAAATTATTCCTCACTGCATGTTGCTTTTTTCAG
Seq C2 exon
GGTGATTCTGGTGGGCCTCTGGCTTGTCAGATCAGTGATGGGAGTTGGGTTCAGGCTGGAATTGTGAGCTTCGGTCTCGGATGTGCTGAAGCAAACCGACCTGGAGTTTACGCCAAAGTGTCGAGTTTCACCAATTTCATCCAGACCCATGTTGGAGGAATCCAGCTGAAGAGCTCATCCAATCACAACTGGGCCGACCGCGTCCTGGTGCTCATCCGGACTCTGACTCTACTAGTGCTGGTACAGCTGCTCAGATGAACACACACTGACCAAAACATCAACACCGTCCTGTGTAAAGAGGGATTTTTAAAGTAGCTTTAATCATTTTAAATGTAGTTTCTTTCATACTTTAACTTTTATTACCAAAAATAATGATTTATTGAAATGAAACTCTCTTAGCAGCTGCTTTGATTTAAAATCCTCCTTTATCTGTCTCAGATTTATAAGTTTAATTAACTATGAAATGTTTCAGTTGCGGAATGAAACTGTAAATATGCAGATCCACATGAAATGCTGTTTGAACAGATCTAATGTGAGATTTGACAATCGTGAATATAAAGCTTAAATGAGCTATTTTGCACAGTAATGTTATTTACCTTTTAGTTGTATATTTGTATCTGTTGTTAATCGTTTCTCCTGGAATTTTGTAAATAAAAATTTGTAATAAATTTGATGTTTTTAAAAAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040513:ENSDART00000131275:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(22.4=100),PF115923=AvrPto=PD(9.8=11.1)
A:
NA
C2:
PF0008921=Trypsin=PD(47.5=54.0)
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:
TGCCCATCATCGACTCTCAGA
R:
AGAGTCAGAGTCCGGATGAGC
Band lengths:
352-1313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]