HsaINT0088108 @ hg19
Intron Retention
Gene
ENSG00000155980 | KIF5A
Description
kinesin family member 5A [Source:HGNC Symbol;Acc:6323]
Coordinates
chr12:57976884-57978554:+
Coord C1 exon
chr12:57976884-57976998
Coord A exon
chr12:57976999-57978000
Coord C2 exon
chr12:57978001-57978554
Length
1002 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCG
5' ss Score
7.38
3' ss Seq
TCTTTCTCTTTCTTTCCCAGTTT
3' ss Score
10.91
Exon sequences
Seq C1 exon
GAGTGACCTGCCGTGTGGCTATGAGGCTGAGGACCAGGCCAAGCTTTTCCCTCTCCACCAAGAGACAGCAGCCAGCTAATCTCCCACACCCACGGCTGCATACCTGCACTTTCAG
Seq A exon
GTAGCGTCAGGCTGCTTCCTCGGACCAGCCTCAGGTTGCTTCCCTTCTTGCTGACAGCCTCTTTGGTTTTCCTGCTGCTGCTTCTTTTTTTTTTTATCACCTCAAAACTTTAATTATGTAGTTACCCCTCAACTCCTGCTTTCCCCTGTTGGGGGCTACACCTGTGCTGCCCCATGTAATCTGGACGTTGACCTCCCGTGCCCCCTTTTGCTTTCCGTTAGGCTACAGTGGTAACCACAGTACTGTCTTTTTGCCACTAGGGGTCACTGTCACATGTCCAAAGAAGTGAGCTTGGCCGCTGTAGATTAGAACCACAGGGGTGGTAGACTGCAGATCTATCAGGAGACCCTAGGGGGCCATCTCAACCCCACCTCTTCCTCCACCCTGAAATAATTTTGGATGGATAGGTGTTTTTGGAACTAAGACATCTCCAGTTAAGGCGATGTTTGCTTCACGCCTGCACCTGTGTCCCATCCTCTTCCCATCTGTATATGCCACCAGTAAGCTTTAGGAAACGCCCCACGAAATCAGTCAGCGCTCCCCTCCCATCTTGCTCAGTGGAGGTGGCAAAGCCCCTCTTTTTCCTCCTCTGTCCCCAGGTGCTCTCCTCTAGCAGCACAGGAACCTTCTTTGTTCTTGTGTGTCACTGGGTTTCTCACCAAGGTTGCTTTAGGGCCCAGAAGTGGCACAGAGAACATGGCCAGTCTCTTACTGGGCTGCATCTAAGCTGAGCCCTCTCCAGGGGTTTCCCAGAATAGTAAACCAGGCACACACAGGCAGAAAAGTCTGAGAAGCAGAGAAGTAGGAATGCAGAAGAGGAGTTGGGGAGACCTAGGGGTGGAGGTGCAAGCCTGGGTCACGGGGGGCGGTGGTAGGGGGGTCTGCTTGTTGGTATTAAAGGAACAGGACAGTAAACCAAAGTGTGTGCAGATGCCACCTGTTCCTGTTCTGTGACTGAGCTACAAGCTGGGCCCTCACACCCTCTTTCTCTTTCTTTCCCAG
Seq C2 exon
TTTCTAAGAGGGACTGAGGCCTCTTCTCAGCATGCTGCAAACCTGTGGTCTCTGATACTAACTCCCTCCCCAACCCCTGTTGTTGGACTGTACTATGTTTGATGTCTTCTCTTACTTACTCTGTATCTCTTTGTACTCTGTATCTATATATCAAAAGCTGCTGCTATGTCTCTCTTCTGTCTTATTCTCAAGTATCTACTGATGTATTTAGCAATTTCAAAGCATAGTCTACCTTCCTTATTTGGGGCAATAGGGAGGAGGGTGAATGTTTCTTCTTTCTCATCTACTCGTCTCACACTGAGTGGTGTTAGTCACTGAGTAGAGGTCACAGAGATGACAAAAGGAAAAATGGGAGCTAGAGGGTTGTGACCCTTCATACACACACGCACGCACGCACACAAACATGCACACACGCATGCACACACACAAAGCCTTAAGCAGAAGAATGTCTTAGCATCATGAGACAGAGAAATAGACTCTTCCTCCCTCCTCTTTCACATATAGCACAGGGGAAGGTAAAATGGAAGGGCTGCTAATTGAGACATATAATTTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155980-KIF5A:NM_004984:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.538 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGCTTTTCCCTCTCCACC
R:
TTCACCCTCCTCCCTATTGCC
Band lengths:
343-1345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)