DreINT0140014 @ danRer10
Intron Retention
Gene
ENSDARG00000104200 | si:ch211-285j16.4
Description
si:ch211-285j16.4 [Source:ZFIN;Acc:ZDB-GENE-141219-32]
Coordinates
chr15:17982258-17984416:+
Coord C1 exon
chr15:17982258-17982370
Coord A exon
chr15:17982371-17984313
Coord C2 exon
chr15:17984314-17984416
Length
1943 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TTGGAGCGTTTGTGTGACAGGTA
3' ss Score
6.51
Exon sequences
Seq C1 exon
TTTGCCTTGAACTACAACATCCCCCCTCCTCCTGATGCGTTGGCCTTCAACATTAAAACAAATACAGGAGTCTGCAGCAAAAACCAAGCTTTTACATTAAACGTCACTGTCCG
Seq A exon
GTGAGCCACATTCTGTTAAAAACTACCATTTTCATTAATGGAAACAACCCTCATGTGCATAGCAACGTTAACATTGCCATATCATTCATTAAACCATTATTTGTCCATATAATTGAATTACTTTCCATACTATGCTATACCACCCAAGCTCATTCTGGAAATGTATCGCTATATACATTTCTGTAGAGCGCCAAATACTTCTCAGGAGATACATTTTTTTTGCAGTTTTTGTTTTCATGAATCCACCAGAGGCCGCTCTGTATACTTGTTCTTGCCTAAATCCACCAGAAATTGCTGTCAATTGACTAACTGACTGACTGACCCCCCCTCCTCCGTCCCCAAACCCAACCAGTATTGTTTTCAAAATGAATGGATCGGTGACAGGGGTTTCACATTGCATGACTTTAAAATAGGAAGAATCTGCCACAACTTTGTCCAAACTACATCTCACAAACCATACACACGCGAGAAGTGACATAGAAAAAATGCGAGGGCACGCAGTTTAACTTTTGTTATTAACTACATAAGGAGAAAAAAGCCTTTAGTGGGGTAGAAAATGTACTTATTTTAGACACCTGGTTTTGATGGGAATTAGCTATTTCTCAGCTTTTTTTTTTTCTTTTTTGAGCCAGTTGTGATATTGCTCAGATGAAATGTCAAACAGACACAGTGCTCCTGCCAAATTTACACTAGTTTTTCCTCCATTTGGGTCCAAATAAACTGAAAATGAACACTTTTAACCTTTTTTAATCTCCTGCTGGCCACACTAATGAATGCTGCTCTCTCATTGGCTGTTGTTGATCGCCAGTGTTATGTTCAATCAGCACAGATTTCACACGACATGATTTTGATCATGAATCATGACATGATTTTTAGCAACAGGTCCAGATATTTAGCATGCCAAATTTCTCACGGATGTCAGTGACTCATCTGTGATTCTCTCAGATCGCATCTATGATAGTTCAACTGCGTGATTTCTCAAAACCCATTGGTGAGTCAAAATTGGGGCTAAAATCATGCAGTATCAACTCGGCATTACCCGCTTTTTGGAACCAGACCTGAACACTGTCGTTATGGTCAACTCCTCTGTGCATCTCAAGTCAGCCGACATACATGGCAAACTAACTGGACGAACTGGTGACAGCAGGAAAGCCGTCCATATGAAGATTAGCGGTCAGCTGTTAGTGCGAAAAGGAATGTCATCATACCGCCGTGTAGCATTTGATTTAAAAACTAAATGCAGCCCTACAGTACGTACTTCTGGATACATAATTTTGGATCTCCAGAAATGTGTATGGGGCTACGTTTTCAGAATGAGCCTATGTTGATGCTATACTATACTTACAATAAACTAAACTAAACTATAATATGATACTATACTATACTATACACTACTATACTACACTGTAATATAGTACACTACACTATACTATACTATACTATACTACACTACTATACTATACTATAATATAATATACTATACTTTATTATACATACTATTAAGTGAGAGTTCACCAACATTTATTTGCCATCTTGTCAATAAAGAAGATATTTTGTCTTTTTATGACATACAAAATAATGATAAATTGTGATCATGCACAGGCTACGTACAGTAAAAACATTTAAGATAAAAAAATAGTAAAAATGTGTAAAACTAATGTGTTTTAATTGTGATTTTGTCATGTTTTTATGCTGAGGAAAAATCTGACTATCATACTTTTTTGCTAAGGTTTACATAAGTGAGCTAAATCTAAAGAAAGAGAGAGAGCAAGCAAAAAAAAAAAAAAACTGCTGAATGTGCAGCGTAAGGAATTTGACTTTGAATGAATGAATACTGAACCTACTTTGTGACCTAATAGACTCTTTGCTGTCTGTCAGTCTACATACAGGACATTGTGTGCTTGTAAAGCCAGTTTGTGATTGTTGGAGCGTTTGTGTGACAG
Seq C2 exon
GTATGATGGCAAACGAGAGGAGACCAACATGGTGATCATTAACGTCAGGCTGCTGTCTGGGTTTAAGCTGGATGAGGCGTCTCTGCAGGCCGTGAGTGACACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104200:ENSDART00000163765:32
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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCCTTGAACTACAACATCCCC
R:
GTGTCACTCACGGCCTGC
Band lengths:
214-2157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]