DreINT0178445 @ danRer10
Intron Retention
Gene
ENSDARG00000039730 | zgc:112160
Description
zgc:112160 [Source:ZFIN;Acc:ZDB-GENE-050417-229]
Coordinates
chr7:34790652-34791811:-
Coord C1 exon
chr7:34791678-34791811
Coord A exon
chr7:34791592-34791677
Coord C2 exon
chr7:34790652-34791591
Length
86 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCATCTTTTTCTCTGTTTAGGGT
3' ss Score
11.36
Exon sequences
Seq C1 exon
CTCTGTTCACCCCTGATGAGCTCCAGCAGGTCGCTCTTCCACTGTTGTCCAATGAAGATTGCAAGAACCACTGGGGAAGCAACATCCGGGACACCATGATTTGCGCAGGTGCTGCTGGTGCCTCCTCCTGCATG
Seq A exon
GTAAGAATGTGGTCACTTCCTCAAATCGCTCTTTCTCTCTACAGTACCTATCTTGGGTCAACTCCCTCATCTTTTTCTCTGTTTAG
Seq C2 exon
GGTGACTCTGGTGGTCCTCTGGTCTGTCAGAAGGATAATATCTGGACTCTGGTGGGTATTGTGTCCTGGGGCAGCAGTCGTTGTGACCCTACTATGCCTGGCGTGTACGGCCGAGTCACCGAGCTCCGTGACTGGGTGGATCAGATTCTGGCCTCCAACTAAATAAATAAAATGTACAGCCAATCTTTGGCATCACTGAATTGTATTTTTTTATTTTTGAGAACAACAATCAAAACCAAAGAAAATGTATAGGATTTCAATTGACTTATCTGATAATAGCAACACTTTTTGTGCTTCCCAACATACATTTTACTCACTGCGAGTAACTAATCATTCCAAAACTTTGACCAAACAGCTTATTAATGCTAAAATGAGCGTTGCATGTTGCTTATAGTCAACATACTTTCTAAAGTGGATAATCAAAAACAAGTCTATTCTAGTTTGTCTATACACAGTTTGGGTAATGTTAACACTATCTTAAAGAGAAATGAAATTTACTCAACATTTATTTGCTCGCAAGTGGTATCAAGCCTTTATTACTTCTGTTGAACAAATAAGAAACTATTTCAAAGAAAGCTGACAACCCCTAACCATTGACTTCCATAGTAGGAAAAACAAATGATACTATGGAATTAAACCGTTTTCTAGCTTTCTTAAATCTTCTGTTTGGTTTAACAGAAGAAATAAACTTATATTATTAACTCAAATAAAAAGGTTTGATGACTGAAAATGATGACGGAATTTAAGTTTTTGGGTGAACTATCCCTTTAATTGAGGTAAAACCATAGCTGTTATAACTTTTTTGTAATCTAAATATTTCTTTTTTAAGAAATAGCCTGTCATGAAATGCCATATTCTGCAACAAAAAGGTCTCTGTAATGAGTAATGTAACATGCTTCATCATAATGGAATTTAAATAAAAACATGAGCTACAGTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039730:ENSDART00000058067:6
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:
PF0008921=Trypsin=FE(19.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.0=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAAGAACCACTGGGGAAG
R:
GTAGGGTCACAACGACTGCTG
Band lengths:
168-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]