GgaINT0011638 @ galGal4
Intron Retention
Gene
ENSGALG00000020939 | SLC35C2
Description
solute carrier family 35 member C2 [Source:RefSeq peptide;Acc:NP_001026036]
Coordinates
chr20:11071603-11072529:-
Coord C1 exon
chr20:11072400-11072529
Coord A exon
chr20:11072249-11072399
Coord C2 exon
chr20:11071603-11072248
Length
151 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATT
5' ss Score
5.88
3' ss Seq
AATGAGCTGTCTGCACGCAGGTG
3' ss Score
6.98
Exon sequences
Seq C1 exon
GAAATCTGTGTTTTATTTCTTGCCACACACCTGCTGGGAGACCGCCTCAGTCCCTTAAACTGGCTTGGCTTTGCTGTCTGTCTGTCAGGAATCTCCCTTCATGTCATTCTCAAAGCTGTAAATTCCAAAG
Seq A exon
GTGATTCTGGTTTTAAATACCTTTGTGTTTCTCTTTAGGCGTTCTTGCAGTTTCACCAGGAGCTGCACCTGATTCCAGCTGCTTGCCAGCAGCAGGTTTGATGGGTGCTCCAGTGAGCTGCCTTGTTAGTAAATGAGCTGTCTGCACGCAG
Seq C2 exon
GTGAGAAAACACTGAATCTACACAAAGAGACGTGCTCTGAGCCTGTCCTGGAGCTGCTGCTGCACCACACTGAACATGGGGAGGAGGAGGAAGATGTTGGAACACTACAACAACACTGAATGAACGTGAAGCACAGTTCCCTCCTCTATACTTACCAGGTCTGTCTGACAGCTGCCTAGGAAGAAGGTCCAAGATTCTCTGTCTTTGACTTTCCAAAGGAGAATGAGGGTCCAGTGAGAGCCCTGCTGTTCTACTGCAGCGCGGATCCATAGATGCTGCACAGCAAACAAGCAATACCCTTTGCTGGAGAGCAAACTTGGAAGATGAATCCCAGTTCAGCAGAAGTAAAATGGTGAGACTGGGAAAACTTTCTAGGGAATCCTGAAGGCTTTGTATTGAGATTGCAGACCACGAGCTGCGGATCAAGTATGGACATGTCTGGACTGCAGGCTGAGTGGTTCCAGGATGGTTTTAGTGGTGTTTAGGCTTTAGCTACAAAGAGGAAGGTAGGTGCATCTTCCTGTGCTTGTTTTGTGGTTCTGCCGAATGGGAGCTCCTGTCTTTGTGGGAGCAGGTAATTGCATGTAATTCCCAAGACTTGTCCCAGTGAGAAAGGGCCTTTGTGCCTGGTGACCTCCATGTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000020939:ENSGALT00000039096:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF0315111=TPT=PD(23.2=79.5)
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:
ATTTCTTGCCACACACCTGCT
R:
GGGAACTGTGCTTCACGTTCA
Band lengths:
257-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]