GgaINT0115177 @ galGal3
Intron Retention
Gene
ENSGALG00000015850 | SFRS15
Description
NA
Coordinates
chr1:108151040-108152256:-
Coord C1 exon
chr1:108152212-108152256
Coord A exon
chr1:108151202-108152211
Coord C2 exon
chr1:108151040-108151201
Length
1010 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
GAAAATTGTTTTGTTTTCAGTGC
3' ss Score
7.05
Exon sequences
Seq C1 exon
CTCTACAAACACGTTGTCCAGATTGTAGAGAAGTTTATCAAAAAG
Seq A exon
GTAAATTAAAAAAAAAAACATGAAAAAAATACTATCTGCATCTTGTTACTACTGGTGTTATTCAGAGATTGAAGGACTGTTTTGTTAAGATTGCATGTATTTTTTTTATCTCTGATAAAATCCTGATGATGTCCTTATTTGAACTTTTCATGCTATGTTAGGAAGGGTCAGAAAAAAAAAGAAAGTAAAATTCACCCCTCTGTAGTTTCTTAGTGTTGTTGATGTTCAGACTGATTTTCAGTGTCATTGTGGTTGAACCCAGCAGGTATTTCAGCACCATGCCATTAGTTACTCAGTCCCCTCTTTCCCAGTGGGATGCAGGAGAGAACCAGAAAGAAACCAAAGTTGAACTCATGGGTTGATGTAAAAACGATGTCCTAAGATAGAGAAAAGGAAGAGGGGAAAAAGAATAATAGCTATTACGTATATATGTATGTAAAAATTGTGTTTTACATATGTATAATATACTTACTTTGCTGTAGGCACACATAACCATAACTTGCATTCCTGTAAAAATGTTTGTGGTGCCTTTTTCTAACTTGATGAAAATACTACATTGTCTAGAAAGTTACTGTTAAACAAACTGAAAGATTCTTAAAACTTTTCATACATAGTGGTCATTTTAGCTCATGAGTGATGTGTAATACCAGCTTCTTTCCTTGGTGTAAAATTGAGTCTGTGGCTTTTTGTGGAAGTTTGCATTTGAGCATAGCATTACTTTTCACTTTTTGTTGTCCTTGATAACTGTTACTTATTGTTGAATGTATTTAAATACTTGTTTTCATACAGAAGATACTAAAAATTTGCGAATGGATAATTTTTTTGACAGTAATGTTTGATTTTATGCCATCCATGATTTTCTCTGGAGTTCATATAGTTCTAAAAACAAATATTTCTGTTGCTTTTTTTCTGTACTCTGATATGCTAAGTGTAGATTTCTCATAGGAAAGTAAGGAAAGATGGCTACCTTGTTATCATCAGTGTATAACAGAAAATTGTTTTGTTTTCAG
Seq C2 exon
TGCAAACCAGAATATAAGGTCCCTGGATTGTATGTTATTGACTCTATTGTTCGTCAGTCTCGTCACCAGTTTGGAACGGATAAAGATGTCTTTGGGCCAAGATTCTCTAAAAATATTACTGCCACATTCCAGTATTTGTATCTCTGTCCATCTGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015850:ENSGALT00000025555:3
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:
NO
A:
NA
C2:
PF048188=CTD_bind=PU(72.7=88.9)
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:
ACACGTTGTCCAGATTGTAGAGA
R:
CTTGTCTTCAGATGGACAGAGA
Band lengths:
199-1209
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]