GgaINT0125481 @ galGal4
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr17:8783066-8784451:-
Coord C1 exon
chr17:8784303-8784451
Coord A exon
chr17:8783696-8784302
Coord C2 exon
chr17:8783066-8783695
Length
607 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TAACTTATTTTTCTCCTCAGGGA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GAGATTCTGGATATACAGCTGGGTATCAGTTCTCAAGATGATCAGCTGCTCAATGGAACAACTGTAGAGAATGGGCATCCACTAAAGCAGCACCAGAAAGAATCTATGGAACAGAAGAGACAAAGTTTAGGTGAAGACCTTGTGATTCT
Seq A exon
GTGAGTGTTAGACAAAACAGCAGTGTCTGCCAGTATTAGACAAACAAAAGCAGCAAAATAGTTGTGTGTTTAAGGATGAACCGCACACCTGTTCAGACTTGGGTTAGACATCTGCACTGTGTATACGTGGTGAAGTGAGAAGAACCTGTTAAGAAGTCAAATTAGGTCACAAATGCGAAAGTCATAGAATGGTACCATTGTTTGTATGCATTGCTGTAATCATATGTGCTGAAAGAGGTCACAGCTGTTAAAAACACCTTTCATGTACTCAGTAAGCAAAAAATCTGAAAGTATTTTTATAGTTACCAGAAACTTAGAGAAATTCCAAAAGGTTGAGTTTCAGACTGTTTGCACAAATCTCTATAGAGAGGTAGTTTTAAAAATACACTATTTTAGGTTTATATGTTCCATAGTTTTTAATGTATAATGCAGTCTTTGAAAATGAGGCAGACTGCATTTAACATCCTGAGCATACCTTTCCATAGTAAGATGTTATTCCTGTTTCTAAAAATAAGTTTGTCATTATTTATTTAATGCACAGAAATTCAGTTCTGGATACTTGTGCATGTACTTGTTTAATATTTGTGTAACTTATTTTTCTCCTCAG
Seq C2 exon
GGAGGAGCAGAAAACAATCCTGCCCGTAACTTCTTGCTTCAGTCAGCCGATCACAACATCTGTTAGCAATGCAAGCTGCCTGCCCATCAGCACATCAGTCAGTGTTGGCAGCCTCATTTTGAAAACTGCTCACATTATGTCTGAGGATAAAAATGACTTTTTAAAGCCTGTTGCAAATGGCAGGATGGTTAACAGCTGAAAGGCATTCATCTTTCCAGCTTGTGACCACACCGTGGAAGCATTTACACTAGCTTTTTATATATATAATATATATTATATAATGTATATTTTTTTTAAAGAATAATATTGGGGTCATGCATTTCCTGTGGACTCTTTGATACTTCAAGCCCCTCTCGCATTAGCATTCTGAAGAAAAAAAAACTTACTTTACTAGGGTAAGGCGTTCACTTTCCACAGATGAATGGAATTTGGACATTGTTTTACTTAAGCTTAAAGCAGCTTTTTATGAGTTTGTAGCAATCCGGTGCGGTATCTGAGCCATTCTTGTTTAAAATGGCTTCTGTAGAAAACTAACAACTCAGTTATTTAAACTAGCAGGATCCTACGATGATACATCTAGTGAAAGGAAGACTAACTTATTTGTCTCTATTTTGTTTCATGAGAGAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.640 A=NA C2=0.121
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCAGCTGCTCAATGGAAC
R:
GGTGTGGTCACAAGCTGGAAA
Band lengths:
343-950
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]