GgaINT0011634 @ galGal4
Intron Retention
Gene
ENSGALG00000020939 | SLC35C2
Description
solute carrier family 35 member C2 [Source:RefSeq peptide;Acc:NP_001026036]
Coordinates
chr20:11074437-11074850:-
Coord C1 exon
chr20:11074778-11074850
Coord A exon
chr20:11074606-11074777
Coord C2 exon
chr20:11074437-11074605
Length
172 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
TTGTGTTTGCTCTCACCCAGAGG
3' ss Score
6.86
Exon sequences
Seq C1 exon
CTACACGATGACCAAATCCTCTGCCATTCTCTTCATCCTGTTGTTTTCATTGCTCTTCAAGCTGGAGGAAATG
Seq A exon
GTAAGGGTTCAGTGCAGTGCTTTGAGGAGGCTGAAACTCAGGCACAGGGAGGCAGGAGATACGTGCATGAGAAACATAAGTAGAGAAGGAGTGCAATTGTGTGGATGACTGGAAGAGTTAACCGTTTGGCTCTAGGAGTCCGTGTAGTGACTTTGTGTTTGCTCTCACCCAG
Seq C2 exon
AGGGTGGCATTGGTGCTGGTGGTTGTGCTCATCGCTGGGGGGCTCTTCATGTTCACCTACAAGTCCACGCAGTTCAACACACAGGGGTTCATGCTGGTGCTCTGTGCCTCTTTCCTTGGGGGTGTTCGCTGGACTCTCACACAGATACTTATGCAGAAGGCTGAACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020939:ENSGALT00000039096:8
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:
PF0315111=TPT=PU(18.5=49.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACACGATGACCAAATCCTCTGC
R:
CCAGTTCAGCCTTCTGCATAAGT
Band lengths:
242-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]