GgaINT0050186 @ galGal3
Intron Retention
Gene
ENSGALG00000012484 | RIF1
Description
NA
Coordinates
chr7:36776394-36777638:+
Coord C1 exon
chr7:36776394-36776583
Coord A exon
chr7:36776584-36777545
Coord C2 exon
chr7:36777546-36777638
Length
962 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
ATCTTTCTTCCTACCTACAGAAA
3' ss Score
10.39
Exon sequences
Seq C1 exon
CTTAATGGAGCAGGCTCCAGCCCAGATGGGAGAAGAGGCTGTGAGGTGGGCAAAGCTGATCATCCCACTGGTCGTCCATTCAGCTCACAAAGTGCAGTTACGAGGTGCCACTGCGCTGGAGATAGGCATGCCACTGCTGCTTCAGAAACAGCAGGAGGTGGCAGCTGTAACTGAGCATCTGATGACCACG
Seq A exon
GTAAGTGGAAATGCTGTGCCTTTTGTCTAGAGAAAGCAGTAGTGATCAGGGGTTGAGAGTCTGTCTCTTAGTCTAGAGAGCTGCTTTTTGCTGCCAGTGTGTGTTGGCAGCAAATTCGTGATGGCAGCGGTTCTGACAGAAAAATAACAAGGTAAGCATATGACCACTGAAAATCATTTCTGACAGTTAGCAGTGAGGGCAAATGTTTAAACACCTGTCTGGACAGCATTAGCTCGTAAATAGTATCTTTACATTTCACTTGTTTCTTAAAGAGAATTTGTTTACCTCATTGCAGCCTTCCAGTACCTAAAGGGAGCCTATAAACAGGAGGGGAGTCAACTCTTTACAAGGGTAGATAATGGCAGGACAAGGGGAAATGCTTTTAAGTTGAAGGAGGGAAGATTTCAGTTGGATGTCAGAGCGAAGCTCTTTACTGTGAGAGTGGTGAGGTGCTGAACAGCTGCCCAGAGAGGCTGTGGGCCCCGTCCTTCCCTGGAGGTGCTCAAGGCCAGGTTGGATGGGCCCTGGGCAGCCTGGGGTGGTATGAAATGTGGAGGTTGGTGGCCCTGCCTGTGGGGGGGGGGGGGGGGTTGGAGCTTCATGATCCTTGGGGTCCCTTCCAACCCAACCATTCTATGATTGCATGATCTGGTTTCTTCCTAACGATAGTAAGTGATGGACTGCAATTTCATGCCCCTTACCTCAAGCTAAACAAGTTAGAGAGGCTACAAGTAATTAAGGATCAGTAATTGCAGCCTGCTCTTCCTTTCAAGAAAAAAGGTAACCATGTGGCAGCAGCATTTAACTGACTCAAAAGCAAACGCTGTGTGGTACAAAGTGATACCTTTCTGATCTAGAAATAACAAGTTGGTTGTGTCTGTGCAGGTGTCATTGCTTCGAGGACATAGTTTTGAAAATGACTTGAATGTATTCCTTTTACAAATCTTTCTTCCTACCTACAG
Seq C2 exon
AAATTAATTTCGGAACTTCAGAAATTGTTTTCTACTAAAAACGAGACATATGTTTTAAAGCTGTGGCCGCTGTTTGTCAAGTTACTTGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012484:ENSGALT00000037786:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF122313=Rif1_N=FE(17.5=100)
A:
NA
C2:
PF122313=Rif1_N=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGATGGGAGAAGAGGCTGT
R:
CTTCCCAAGTAACTTGACAAACAGC
Band lengths:
262-1224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]