DreINT0137751 @ danRer10
Intron Retention
Gene
ENSDARG00000035796 | si:ch211-206i14.2
Description
si:ch211-206i14.2 [Source:ZFIN;Acc:ZDB-GENE-110407-4]
Coordinates
chr7:54895889-54896864:+
Coord C1 exon
chr7:54895889-54896032
Coord A exon
chr7:54896033-54896340
Coord C2 exon
chr7:54896341-54896864
Length
308 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TGTGATTGTTTGCACTGTAGAAC
3' ss Score
7.11
Exon sequences
Seq C1 exon
GACTTTGATTTGAGTGTGCTGCATCGAGGCCTGGACAACAGACCAAATGTGTACAGGAACGACATTTGTCCTATTTTTTTGTCAGCACCTCAGTATAGACCTCGACCAGCCAGTTCTGAGGACATCAGCACATTTGTTGATCAT
Seq A exon
GTAAGTAATACACTCTTACAGTAAAAATAAACTAAAATATACTTAATTTAGATTTAGATTAACAAAGTATCTATGGTATAAGACTTTTTTTTTTAAAGGTAATATTTTGGGGGTCCATAGCAAATAAAAGACCCCTGTGCATCAACAATTATAATCAGTTCAATTGAGCATATCCATAAACGCTTCCATCACTAGAAAAATGTGATGCACCTTTGATAGCAGTCAATTGGCACCCCCATTTATCACAATTACATAAAATACTTTGATTGCCTTCTTCATAAATGACCATGTGATTGTTTGCACTGTAG
Seq C2 exon
AACCTGAAGACTGCAGATAATGACCCCACAGCTCCTCCCTACGACTCTCTGCTGGTGTTTGACTATGAAGGAGTAGGTTCAGATGCAGGTTCACTCAGCTCCCTCAACTCTTCCAGCTCAGAAAATGACCAAGACTATGACTTCCTCAATGAGTGGGGCCCACGCTTCAAGAAGCTGGCAGATTTGTATGGAAGAGAAGAGGATTAAATGTTCAATTCAATTAAATTCAATTCAATTCAAAATGTAAATCCTGCTTTAAACACAACATCAAGTCTTTCTGTAATGCTCTGAGGGTTTCAACTCAGAGAATGTCAGCAGCCTAGTGTCAATAACATACAGTGTTCAAAGGCATTGAGGATGTTTACAAGTCCCAAATATGTGACAATTTTATATACATTTTTACTTAGAGGGGACCTATTATGCCCCTTTTTACAAATGTAAAATAAGCCTATGATGTCCCAAGAGTATATGAAGCTCAAAATACCAAACAAATAATTGTATAACTTGAAACGGCAACTTTTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035796:ENSDART00000148642:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.285
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=FE(31.5=100)
A:
NA
C2:
PF0104912=Cadherin_C=PD(43.6=94.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGCCAGTTCTGAGGACAT
R:
TGAGTTGAAACCCTCAGAGCA
Band lengths:
344-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]