GgaALTD0001701-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000004467 | CLIP1_CHICK
Description
NA
Coordinates
chr15:5903509-5905945:-
Coord C1 exon
chr15:5905759-5905945
Coord A exon
chr15:5905729-5905758
Coord C2 exon
chr15:5903509-5903706
Length
30 bp
Sequences
Splice sites
5' ss Seq
CTAGTAAGC
5' ss Score
5.2
3' ss Seq
AATGTGCTTGCTTTGTGAAGTTG
3' ss Score
3.03
Exon sequences
Seq C1 exon
ATACTTTCAGTGTCAGCCAAGATACGGTTTGTTTGCTCCGGTCCACAAAGTTACAAAGATTGGATTCCCATCGACTACCCCGGCAAAAGCGAAGACAACTGTGCGAAAAGTGGTTGCGACTCCCGCAGCCCTGAAACGTAGCCCGAGTGCATCTTCCCTGAGCTCTCTCAGTTCTGTGGCATCTTCA
Seq A exon
GTAAGCAGCAAGCCGAGCCGTACAGGACTA
Seq C2 exon
TTGACAGAAACATCCTCCCGGTATGCAAGAAAGATTTCTGGTACCACAGCCCTGCAGGAGGCACTGAAGGAGAAACAGCAACATATTGAACAGCTCCTGGCAGAAAGGGACCTGGAGAGGGCAGAAGTTGCAAAAGCAACCAGTCACGTGGGGGAAATAGAGCAGGAATTAGCACTTGTTCGAGATGGACACGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004467-8-6,9-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.274 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0130220=CAP_GLY=PD(27.3=24.7)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCATCTTCCCTGAGCTCT
R:
TGCTGTTTCTCCTTCAGTGCC
Band lengths:
122-152
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]