DreINT0135082 @ danRer10
Intron Retention
Gene
ENSDARG00000063300 | si:ch1073-385i9.2
Description
si:ch1073-385i9.2 [Source:ZFIN;Acc:ZDB-GENE-131127-512]
Coordinates
chr16:52078697-52080742:-
Coord C1 exon
chr16:52080571-52080742
Coord A exon
chr16:52078840-52080570
Coord C2 exon
chr16:52078697-52078839
Length
1731 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGT
5' ss Score
6.12
3' ss Seq
CCCTCCCTTTCCCTTCACAGCTC
3' ss Score
12.31
Exon sequences
Seq C1 exon
AGTCAGGTTTACAGGAGTCAACCAGACTTGGTCAGCGCAGCCTACGATGCCACTGGCACCACTCTTCCAGCAGATTACACCTACAGCCAGTATCCTAACCCTTCAGATACTGTGAATTATGGTCAGGATCCTTATAATTCTGCTGACAACACCTGGTCTGCACCAGAACAGC
Seq A exon
GTATGTATACAACACAAACACAAAAAATAATCATAAGCTTTTCACTATTTTAGCTGGATTATGAAGTTTATTGCTTGACTGTATAATTGACAATATGTTATATTTTAGCTTGTATTTTGCTAACCTTGCTAATTTATTTTGCTAATGCATAAACTGTTCCAGCGTCCCAAATGGCACACCATGCACTTATACGCTATGTACTTAAGCACTCACTCACTCAACAGCATAGTATGAAATGGAACACAATTTTTTTTTACTAAGCAGAAATTCAAACTGTTTTACTGATGATGTTTGATGGTCGCCAAATCAGTGAAATAAATGACCAAACTACCAAATAATACCTGCCATGAGTAAACCCGCATTCACCATTGAAGGCACTATAATCATTCTCATAGGAGAATTTAGCTTTCACAATCCAAAATAAATAAAGTAATCCAACATGTGCACTCGAAAGCTCTGCCCCTTTCGCTACGTGAGCAAAACTGCGGGCGTTGAGTGCATTAAGTGTCCATTCCACACTTCATTTCACTAGTTAAATGAGTGCATCGTCCGTGTAATTAAAGTGCACTTAATATTTTTAGAGTTTTCAGTGTGAACGCACTACTTACACTATTTATACTACAAAATGGCGTAGAATAGTGCATAAGTATGTGATTTGGGATGCACCTTGTGTATATTATATTTTTATTTAGCATATGCAATTAAGAAATTGACAAGAAATGTTGCCCTCTCAGGTTCCTTAAGCCATTTTCTCAGTACATGTTTAATTTTATAATGCATTTGGTCTAAAACTTATCTTATCTTGACAACCTGTATGTCATCTTCCTGTATCATATATAATTTTCAAGGCAGTTAAGCCGTGTTCATTTCATCAAACAAAAGTAAGGACAAAATCTGTTCATTGCCTACAGCTTGATACAAACAGAAACTTGACGGGTCCTAGTAACGTGAGTGAAAAGTATGGATTCATGCTCATGATATGAATAAACAGCGCGTTATTGTTGACAATAAAAATATGAGATGAAATGTAGTCAAAAATCTAATTTATTTTTTTTAATAATCCACTGCATTTAATTTCATTGCACCCATTCAGTCACGTTACTGGTACAGAAGACCTGTCATATTATATATATATATATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTATTTTTTTTTTCAAACTGCTTGTTTAAATGAGCTAAATCAACACAATTGTTGAGGTTTTTTTGAGGGACAACTTAATTATTTTATGTTCAATCCTCTTAAATTTGTAAATAAGTTAACCTAATTCATGTTGTCCTAACAGAAATCGATTCTCTGGGACCCCAAATTTTTTACAGTGAAGTTTCTCTTTGTCAAGCCATTTCATTGACAAAATTAACACTGCTGTTAAAGGGTTAAATACAGTGTTTTTTTATATAGTATTTATTTAAAGGAAGCATATGTATATTTTATTAAAAAAAAAAATTTTGGTAACTTTTGTGACCTTCAGCTTGGCATAAGTGTGGCCCTGCATTCTATGTAAGAATTAAACACAAAAGTTTGCTTTACAATACGTATGTTCTTCATTTTGTTTCACTAACATTAGTTGGGAATTGAAATAACTATGAATTGTCTTTTTCTCCATTTTTTTTTTCCCTCCCTTTCCCTTCACAG
Seq C2 exon
CTCCTCCAAGACCGTTGACCCCGGAGAAGTTTTCTATTCCTCATCGTTGTGCTCGTTTTGGTCCAGCTGGTCAGCTGATCCTTGTCCAACCCAACCTGCCCTCTGCTGGTCAGCCCACACTAGTAGAAATCCACAGTATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063300:ENSDART00000092348:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
AGTCAGGTTTACAGGAGTCAACC
R:
TACTGTGGATTTCTACTAGTGTGGG
Band lengths:
310-2041
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]