GgaINT0036077 @ galGal4
Intron Retention
Gene
ENSGALG00000004587 | RC3H1
Description
ring finger and CCCH-type domains 1 [Source:HGNC Symbol;Acc:HGNC:29434]
Coordinates
chr8:7353702-7355098:+
Coord C1 exon
chr8:7353702-7353817
Coord A exon
chr8:7353818-7354944
Coord C2 exon
chr8:7354945-7355098
Length
1127 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCTCCTCACAACTTTTTCAGCAG
3' ss Score
6.89
Exon sequences
Seq C1 exon
GAAAGCCAGTCTTCACTGGATATAAAAAACAAACTGGGCACCACTAAACAGACAGAAAATGGACAATTAGAACCACAAAGCAAGGTTCCAGCTGAGGACCTCGCACTGGCATTCAG
Seq A exon
GTAAAATGAATACTACAAGCTTTCTTTGCACAACAGGGGAATGGCTTAATTGGGGTCAGACTGTTATATAAATAAATACCCCTTGCCTCATCTTTCTGATGTGGAAGCAACTGCTAGGAAAAGATTGTACAAATCCAATTTTTATAGTGCAAGTGTGAATTAAGGGCCATTTCAACTGATGGGTAGCTAGCTGTACAATAGTTAACACAGCAGAAAAACTGCTGTATTTTTCAGACTAGAAGTCCATCTAGTCAATATTGGATGACTAATAGGGAGGGGTGGGAGATGCACAATGACCATAGAAGAAATCATTATCTGCTGATTTAGTTTCAAATAAATGTTCCAAGTGTGAGGGGGGAGGTCATTCCATCCCAGTACAGTTTGTAATGTGAATGTTGTCTAGGAAGGTACGTAGCTTTGAAACCAAGTTCATTTTTATTAGAAGGCAGTAATTTTTTTTCAGTATAGATTCTAGGATTAGTTTGATACTCAGTTGAAATGAGTTGTTGGCTGGCAGTGCTGGGAAATCTGCAGTGACTATTTTCATTGGCTAAAAGCATCTGCAGATACTCACATGTTTTCAGAAAGGCTCAAATGCTGCAGATGCTTCGTTGAGTCAAGGCTACCTTACTTCATGCAAGTGGTTTGGAACCTGCATATTTATTCTGAAAGTGTATTTATTCAGAAAATGTATCCTTTTCAGTAGTTTATGAAGTCCACACTTCTTATAGCCACTCTTAGCTCTCCTTTGAACTATTAGACTGAGACCTCTGAATGGAAACTTTCAGCCGCAATTTCAGTACGAAACCCTGAAAGTAATGAATTTGAAACAACTTCCATATATCCATGCATGTTAAATATTCTCGAATGAATGTGTGTCTCATGCAGAACTTACCTGGAATACTAAAGGCAGTTGGTTTTGTTTGTTTTCATATAGTCTTCTGTCATCTTGATGAGATCTGAAGCGTAGCAGACAGCCTATTCGTTGTACAGGGCTTGTGTTTACACATGTTCAGAACTGCTCATTGAGGTGCTACAACAAGTATTGAAGTCCTTTCACTTAAACTTTCAAAGCTCAGTAATAACTCCTCTTCATCTCATCTCCTTTCTCCTCACAACTTTTTCAG
Seq C2 exon
CAGCGATGTTCCAAATGGATCGGCCTTGACACAAGAAAACATCAGCCTCCTGTCAAACAAGGCAGCATCTCTCAGCCTGTCGGAGGACCCGGAGGGAGGAGGAGACAGCCAAGATTCCCAGAGGATGGGTGTTACACCCACATCTGCTCCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004587:ENSGALT00000007298:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.949 A=NA C2=1.000
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACCACTAAACAGACAGAA
R:
TCATGGAGCAGATGTGGGTGT
Band lengths:
234-1361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]