DreINT0179492 @ danRer10
Intron Retention
Gene
ENSDARG00000070713 | zgc:162180
Description
zgc:162180 [Source:ZFIN;Acc:ZDB-GENE-070424-25]
Coordinates
chr6:39093159-39093794:+
Coord C1 exon
chr6:39093159-39093269
Coord A exon
chr6:39093270-39093405
Coord C2 exon
chr6:39093406-39093794
Length
136 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTGTTTTTGTGTCTCTGCAGTGG
3' ss Score
10.41
Exon sequences
Seq C1 exon
CCTCAATCTCTTGTCGCAAGAGATGTGGTGAAAAATACGACATCCGCAACCGCTGCAACTGCAATAATCGCTGCCACAAAAACTGCTGCTGGGATTATGAAAAGAAATGCA
Seq A exon
GTAAGTTCAAATAATCCTGTGGTTCTTTATGGTGTTTATAGTGGTGTAAGACTGAAATCACTGATCATGCGTGTTACAACAGTAATAGTAGAAAATACAAGACGTCCTTCATCTGTTTGTTTTTGTGTCTCTGCAG
Seq C2 exon
TGGATCAAAGAGGGTAAACTCTTGGTCAACACAAGCTTCTCTGTGACGGCTTCTCTCTATGTGTCTTTTCATGTTCTTCATGCATTCTGTATGATGTCAAGTACAGTTTACAGAATAAATAAATAAATAAATTTTATAAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATGTTTAAATCAGCTCAGCATTTATATTATTTTCTTCTCTTGACTAAAGATTTCAAGTCAAATGTCAAATAAGTACCTTCATTTACAAATTCTTGTATAACATAAAACATAAATATGAATGTAATTTCTGTCTTGTTTTCTATTTATCTGTTATCTGTCATGATTAAAGAAATACTTTGCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000070713:ENSDART00000004240:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0103312=Somatomedin_B=PU(88.1=97.4)
A:
NA
C2:
PF0103312=Somatomedin_B=PD(9.5=66.7)
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
(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:
CCTCAATCTCTTGTCGCAAGA
R:
ACTGTACTTGACATCATACAGAATGC
Band lengths:
218-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]