DreINT0178420 @ danRer10
Intron Retention
Gene
ENSDARG00000046140 | zgc:112038
Description
zgc:112038 [Source:ZFIN;Acc:ZDB-GENE-050522-271]
Coordinates
chr3:21085857-21087585:+
Coord C1 exon
chr3:21085857-21085996
Coord A exon
chr3:21085997-21087193
Coord C2 exon
chr3:21087194-21087585
Length
1197 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TTGGTAACTGTTTAATGCAGGGA
3' ss Score
4
Exon sequences
Seq C1 exon
ATATTCAGGTTACAAACGTGCTGCGGGAGGTGCAGTTACCGGTTGTGAGCAACACAGAATGCAATGCAGACTATAAAGGCATCATTACAGACAACATGATTTGCGCTGGAATAAATGAGGGTGGAAAAGATGCATGTCAG
Seq A exon
GTATGATATTCATCGTCAGGTGTCCACTATACAAATTTAGGCAGTACTTTGCATATTTTTAAAAAGTAAAATGTGAAGTGGTCAATGTTATACAACTAAAACAGCAACATTTTTTATTTAATGCCAGAAGCAACACTTCTCTTTTGAACGTTTTTTTTTTTTGCAACAAATCCCTCTGCTGCAAACAGAATCATCAGTTGAAGGCGCATGATTCAAGTTAAAAAGCCTTTATTCTCATGGCTAGTTTTGTAAACCACACATGCACCCCTCTCTCTGTATTGCTTTTCAGTAATTTTGAGGTTCTTTGTCTACAGCAGATTTGCAGTTTACCTTTGGTCAACAAATTAATCAAAGGGAATGTACGCATCTTATCCAAGCATTTATGGCACAAAAAGCACATTATATTGAATGTGTTAACGTATGAGGTGTTTCCTGGAGTTTATAGTGTATAGTTGCATAGACAAACTGGATTTTCTAAATGAACAGATTCCCAATGAAGATAATTTCTGAATGAACAGATCAAACTTTTGAGTTTTGCTGTATTATGGACAGTTTCGCCAAATAAACACATAGCTATATCTGTAGTTACCATGACTTTCATGCAGTTTAGGTGACATATAAATGCAGAATAAATAAATATTAAACTATTTCCAAACAGTTTTGTGAAATATTGCTTTTTTGGATTGCCTAAAATTGACAAATTCACTTTGAGCGATTTTGAAAAGTAAAAAAATCCTAGAGCTAATTTGCTTTTTGTACATGTATTGCCAAAAATATATATTTTTACTCCATTTTTTATTTGTTCTCTATTCTACATATCTAAATATTCTTGAGTCAGTATACCATTTACTTCAGAAGTAAAATATTTTCAGATACAACTTTAAATTGTTCTCTAAGCAATCAATTTGAGTCTAAAGAAAATCATCAGAAAAACAATCCTTTCAATAATTTGTCTGTATTTTTCTGCATGAACTGGTAAATATTTAAAGTTGGAATAAATATAATAAAAGGTATATTCCAAACAAAAATTGTATAATATTTTAAGAATTAAAAAGCATGTCTCATGTCTCAAAAGCATTGCCTCTTATAAAGATGTACTATGATTTCTAAAAGATAACTGCAAACACAAAAACCCAATGTTTTTACTTTATCTTTTGAGCAGAGACAGAAGTGTTTATTGGTAACTGTTTAATGCAG
Seq C2 exon
GGAGACTCTGGAGGACCAATGGTCAGTCAGAATGGCTCTCGATGGATTCAGTCTGGCATTGTGAGTTTCGGTCGAGAGTGTGGACTACCAAGGTACCCTGGAATTTACACCAGAGTCTCTCAATACCAATCTTGGATCACGTCTGAGTTAAGAACCAACCTGCCTGGATTTGTCTCCTTCACCTCCACTGAAACACGCTCCAGCTCACCGAGTCTGCTTTCATTTTACTTTTCTCTCACATCATCTCTCCTTCCTCTAATTTTCTCCTTTTATCTATTTTTTTGAAAAATGTATGGTTTATTAATTAAATTTTTAATTTTTTTTACAAATGTAATTTTTATTTATGCTTTGACGTATTGAGCACTAATAAAACATATTTAGTACTGTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000046140:ENSDART00000067841:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.1=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=47.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
TCAGGTTACAAACGTGCTGCG
R:
GAAAGCAGACTCGGTGAGCTG
Band lengths:
357-1554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]