DreINT0145636 @ danRer10
Intron Retention
Gene
ENSDARG00000058546 | si:dkey-30c15.12
Description
si:dkey-30c15.12 [Source:ZFIN;Acc:ZDB-GENE-060503-920]
Coordinates
chr18:7441994-7443770:-
Coord C1 exon
chr18:7443639-7443770
Coord A exon
chr18:7442204-7443638
Coord C2 exon
chr18:7441994-7442203
Length
1435 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
TGGTCTCTGTGCGTCTGTAGAAT
3' ss Score
8.51
Exon sequences
Seq C1 exon
GACTTTGATATAATGCTGTTGTGTGGCGGACCAGAGGTTTTCTATAGAGATATTGCTCCGACAGTCTTACCTACTGTCGTCTATAGGCAACTTCCAGAGGAGGATGAAGACATGGAAAACTTCATCTATGAG
Seq A exon
GTTTGTGCATAGTAAGAGTGTAAACCATCTGGTCAAAAGTTTGGGATCAGATTGAAAAAAAATAAGATTCAGAATACAGTAAAAATGGATTAACTGTGAAATGTTGTCTCAATTTAATTTCAGATACTTTATTCCATGTAATTTACATTTATTCCTGTTCAGTTCTGACGTTTTAGCATAATGACTCCAGTTGCGTCACATTATTAAAATACAGATTTGCTGTTTTATTATGATCAGTGGTGTAGTCCTTGCTATACGCATGTATACTCAGTATGCCTACTTTTTTTCCACAGGCTGTTTGGGTATTACGACTTTTGAGGTTCATACCCTCAGTATGCTCGCTTGTTTTGGTGATTAGACTTCCCTAATTTTTGTGTATTGAGTTTGAGTACTTGAGTTTTTTAAAGATCACAACAAATCAGCTGAATGATGTCTCGCTGAAACGTTCAAGTAAATTTATAAAACAGCATGGTCGTCGCTTTAGCCCTCCTATATTTCCATTCATCCCCCCCCAAAACTTTTTGCGATTACTTTTGCGATTATATTTCTTTTTAAAATAGATAGTTCACTCAAAAAAAAAAACAATTGTTATTCAAACCGGTTTGTCTTTTTTGTTCTGTTGAACCCAAAAGAAGATATTGTGAAGAAAGCTGGACACCTGTAACCATTGACTTCCATAGTATTTGCTTTTTCTTCTGGGGAAGTCAATAACTACAGGAAACTGATGTTTAGTATATCAAATGAATCAAAGACACATTGACTTTCATCGTTTTTTTGCCTACTTTTAACATTTGGATTGGGTGAGTAATATTACACCACCTTTTTATTTTAGGACTACACCATTGATTATGATCAGTTATCATCATCAGTGATGGATGTTTTTTTCAGGAAAGAGTAATCAAACAAATTACTTATTCCCCCGTTATAATGCCATTACCATTACTGACAATGAAATATGTGTTAATTAAGAACACTGAAGTGGTTTTCATGTGAGCAGCGTCCCTCTCAGACCATAGGACCTTTCTTTCTCTGGGTGGATATGTGTGTTTGAGGCTGGGGCGGGACAAAAAACCAACCAGTGATGGTGATTACTATTTCTTAATGTGGTGTAACTAAGAATGTGATCATTGGCCTAGATAGAATTCATTTCCATCGTTTGCCATTCAGAAGTAGTGCGGGCGTTCACGGAGATATGGCCAGTGGTCAGATATAGCCATTGTCTTTTACTTAATTACCTTTTACATATTAGTGTTATTTGCACTAAAGTGTATATTTTTATTATTATTATTTATTTTTGGTATATTTTATTCAGAGCAATTTTTGTTAAACTATTAAATTTTGTTGGCACTGCAACAATGGAAAAGGAACCAAATCACATTCAGGAGCACATCCACAATGAAATGCCTGTGTAAAACTGGTCTCTGTGCGTCTGTAG
Seq C2 exon
AATCTGTGCACAGCCGATGATGAGCACTATGTGGCGCCGTTTGACTCTGTGCTGGTGTTTGCTCATGAGGGCGAGGGCTCTAAAGCTGGATCTCTCAGCTCCATACAGTCGTCCATCAGTGACGGGGGTCTGGAATTCCAGGATCTGCACAGCTGGGGACCTCCGTTCAGGAGACTTGCTGATCTGTATGCAGAAAGACAAGATGAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058546:ENSDART00000081386:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.057
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=FE(30.6=100)
A:
NA
C2:
PF0104912=Cadherin_C=PD(45.8=93.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTTGATATAATGCTGTTGTGTGG
R:
TCACTCATCTTGTCTTTCTGCA
Band lengths:
342-1777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]