GgaINT0124130 @ galGal4
Intron Retention
Gene
ENSGALG00000003181 | SURF2
Description
surfeit locus protein 2 [Source:RefSeq peptide;Acc:NP_001039294]
Coordinates
chr17:6875222-6876256:+
Coord C1 exon
chr17:6875222-6875391
Coord A exon
chr17:6875392-6876163
Coord C2 exon
chr17:6876164-6876256
Length
772 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
ATTGACTTTTCTTTCTACAGAAA
3' ss Score
9.23
Exon sequences
Seq C1 exon
CTGGACTCTTCCCAGAAAAAAGCCCAGCAGCTCCCCAAAACACAGAGGCCAACGATGGTTTTGCAACAGACAGCGAGGACGATGGGGCCAAGCTGAGTAGGGAGAACAGCGACGTGAACGGAGATGGTGGAAGAATGGAAGTGAGCAGAGCAGCTGGCAAGAGGGGAAAG
Seq A exon
GTGGGAGTCACTTTGCTGTGCGTAGCAGATGGGGAGCATGAACAGCCATCATCCTATCCTGTAGGTGGTTGTCTGATCTGTTCCTGTCTGAGAATCAGCAGAAGGTGTAAATCTATTTGGGAGAATACTTTCTCCATGTGCCAGCCACTGACTTGCATCCTGAGGTGTGAATTAGTAGCAGTAAATGTTTATCCTGTCTGCTCCAACTGGGGATCTTATTTCCTGTATAAATATCTCATCTTTGATAGAATCCTGCTGCACCATCTTAGCAGTGAGACCACGGGTTCTGTAATCCTACTCTCCAAAAACACACACACTACCTAAACACTTCCAAAGTCGTGGAGTCCTCCTACACCTTTTTCTGCCACTTGAGGAGCTGACCAGGTCCTGCCTTGGGGTGTACTTGCAGAAGGGTATGCCCAGATCCTTCTCAATTTGGGAAACAGACACATTACGAAGGTGAATAAACTCTCTCAGGAAACCCTGAGGGAGGGGCTGGAGCCTTTCTAACTCTATCAGGATGGAAAGTTAAGGCTGGATGAAGTTTAGGTTCATTTCTATGGGGAGAGGGTCACTGTTTGCATCTAATGAAACTGTGTGCCTGTCAGAGACACTAACTTGCAAGACAGGCCAAGAAAACACCCTGGCTTGCCCTGGGCTGTGCTTGTTCTCTCTCTTGGTAAAGGAGACCACACTTGATTTCTCTTTAAGCAGTCTGGGGCAAGGCTGGGTTTAGTTTCTGGAAAAAGCTGATTGACTTTTCTTTCTACAG
Seq C2 exon
AAACAGTCAGGCCCTTCAAAGAAAAAATTCAAGAGCTGTCATCAAAAACCCAAAAAGTTCAAGAAAACAACCAACGGTAAATAAATTTTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003181:ENSGALT00000034772:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF054776=SURF2=FE(21.5=100)
A:
NA
C2:
PF054776=SURF2=PD(9.2=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAAGCCCAGCAGCTCCC
R:
TTATTTACCGTTGGTTGTTTTCTTGA
Band lengths:
238-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]