GgaINT0125475 @ galGal3
Intron Retention
Gene
ENSGALG00000001253 | RC3H2
Description
NA
Coordinates
chr17:9496088-9497803:-
Coord C1 exon
chr17:9497648-9497803
Coord A exon
chr17:9496302-9497647
Coord C2 exon
chr17:9496088-9496301
Length
1346 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
TGTGTTTCCTAAATATGTAGGAT
3' ss Score
7.9
Exon sequences
Seq C1 exon
TTCTCTGAGAGTGTCAATGATTTGAGTGGAACTAAATTTGAGGAAGATCATCTCTCTCACTATTCACCATGGTCTTGTGGCACTATTGGCTCTTGTATAAATGCTATCGACTCAGAGCCCAAGGATGTGATTGCCAATTCAAATGCCGTGTTAATG
Seq A exon
GTAGGAGTTTTCTGCATGTTACCTCATTAATGTAATGATACTTACATGCTAAAGTATCTTCTGTTTGATTAAACAAGCCTTTTTTGATAGCTAATATTTTTGATATCTTAGTTCAAAGTAGCCCAGCCCATATGAAATTGTTTAGCGTATCTCTTTCTAGTTCTTGTAAACTCTGGTTACATCTGTGACAGGATGTAATGCAAGGAATAAAACTGGCAGACATCTGAAATGACCATTTTAATAACGTCTCCGTAAGTCAAACTAGGAGCCAAAATGTTTTGAGTAGATGATTTATAAATTGGTAAGACTTATTAATTTTGAATCTGCTTTGTAATTGTTGGAGTGATGGGATAAAAGCTTTTTGACTTCTCAATCCCATCTCTCTTCATGCATCATAAATAAGTGTTTTTGTGTACATGTGTATTTACAGTTTCTGAGGGATCTAAAGTATTAGTCTCAGAATACATTGCACTGACAGGACTGACCAGTTGATACTGCCATTGTGGCCATTTCAGAGCAGGTGTTTCCTCTGCAGAAACACATTTCTTATGTGGTTCAAGTGAAATTGTCCATGCTGTAGGAATGAATTGCTGGCCTTTTCAGGATTCTAGGATTTACTATGCTGCTATTGTTTCAGTGAATCTTTAAAGTTTATACTAAGAGCAGTGTACACTTTTCTGAAATGACATGAAGAAAGCTGAAATACTGTGGACTCAGGGTAATTAGCATGCATTTAATGTTGTCTGCTTCATATTCCAAGTATCAGAGCTATTTTCCTAGACTACACCTCTTACTTATTCTCCTCCAATAAACAATTCAATGCCAAGGAATCTATGGAGGGGGAAAAATATAACTTAATGATAAAGTATTGGTTTGATTTCCGTAAGGAGGAAAAATACTTTGAGAAACAAAAAATACAAGATATGAATCGTAGCACACAGCTCCCTTTTGGAGGAGTAAGAGCTCGTGACTTTAGAGATTTTCTGCTGTATAGTCTAGCAGGTTGCCTTCGCATTCTTTGAAAGAAGTGTAACCAAGTCTCATCACTTCTCAAGCCTTTTTGGTACTATCTTCAGATATAGGAGATAGTACTGAAGGACCTTGAAGCATAATGGAGCTCTTTTTTGCCTGGAGGCACTGGATTGGAGGAGCAAAATTGTTTCTTCTAATTTTGACAGTAGTGTTAAAGGGCAGTAGTTTAAAGCACTGTGGCCCATCTTGTCTCTAGTTGAACAGATTTGCAGTATTGTATTCAACAACAATAATCAGAAAGTCATTGACATACTGAGTCATCCAAATGACCTCAAAGAAGTCCACTTATCTCTTTGTGTTTCCTAAATATGTAG
Seq C2 exon
GATTTGGACAGCGGTGATGTTAAAAGGAGAGTGCATTTATTTGAAACTCAGAGAAGGGCAAAGGAAGAAGATCCTATAATCCCATTTAGTGATGGACCGATCATTTCCAAGTGGGGTGCAATCTCCAGGTCATCCCGCACGGGTTATCACACAACAGATCCAATTCAGGCCACTGCTTCCCAAGGAAGTGCAACTAAGCCCATCAGTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001253:ENSGALT00000001902:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.361
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF080437=Xin=WD(100=19.4)
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:
TGAGAGTGTCAATGATTTGAGTGGA
R:
TGGGCTTAGTTGCACTTCCTTG
Band lengths:
353-1699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]