HsaINT0036272 @ hg19
Intron Retention
Gene
ENSG00000090269 | CLEC5A
Description
NA
Coordinates
chr7:141627157-141631626:-
Coord C1 exon
chr7:141631520-141631626
Coord A exon
chr7:141630019-141631519
Coord C2 exon
chr7:141627157-141630018
Length
1501 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGT
5' ss Score
8.4
3' ss Seq
TGTTTTGTTTTCTCATTTAGTGT
3' ss Score
10.07
Exon sequences
Seq C1 exon
AAGTTTCTTCAGGACATAACTGATGCTGAGAAGTATTTTATTGGCTTAATTTACCATCGTGAAGAGAAAAGGTGGCGTTGGATCAACAACTCTGTGTTCAATGGCAA
Seq A exon
GTACGTGAACATGCCACAGTTTCCTGGGGATCTTGGTTTGCTTCAAAAGACCAAACCTGAGATTGCTGGGTTCACCCTGGAATAGCTCAAACGCTGACACTTGACTCTGTTCTGCTCTTCTCCTTTCTTCCAACCCATCTATTCCCTGAGACACATTTTAATAAATGTTTTCTTATGAAAGAGATCAAACTTTCATAAGGAGAAAGAAGAGTATTCATATAGCAAATTATTTTATTCATATCAAGATCCAAACAAATCCACCTACATAGCATTCATTTGATGTATCTTGTAGCTCTCTATAGATGCTAGTTTCCATAGCACTGAGCATTTCTGACTGATCAAAAAAGCTCAGTCTCTTGACTTCAAACAGACTAGATATGAGTCTAGACTGGATGCTAGCCATCTCTAGGAGACAGGGTCAGTTTTATGGAGGCAACCCAGTTGGTATAGAGATGAGATCTATTTCTATAACACTAGTGTTTCTGACTGATCAAAAGGGCTTCGTCTTTTAACCCACAGATCACATTTTATTACAAAGTACATACAAGTTTCCCCAGATATGCCTTCTTTATCTAAGAAAGGTTATTATAAGCAACTTGTCTATGTCTTAAAGCTATGAACTTCTGACCCCCAAGAGCTGTCTCCTGTGAATTGTTCCATGGAGATGAGGATTGGTGAGAACATCAATAATCTTCCCAGTGTTTATACAAAAATAGTGATTCAGACAGAGGTCAAGTCAGTCCCCCAGCCTGTAACTGGGCTTCCCTACAGAGAGGAGGAAATTGACATTTATTCAGTGTCTGCTAATGCCAGCACTATGCTAAACACTTTGCATATGTTGTTTCCTGAAATATTCCCCATGATGCTACATGAAAAGCTTTTATCGCTCCCCATTTCACAGACAGTTGAACTGAGGACAAGTAAAGCTTAGAAATGTGTTAAATATCATAAAGCTAGTCCCAAACACATGACATTTCTCCGAAACCAGAGCCTTTTCAGTCAGACTGAAACAGACTGAATGACAGAAAAAGAGGTGGGAGAGCCAACAAATACCTCCACCAAGTTTTTCTGAGGCCACTATGGTCTGGAAAGGGATGCACAACCTCTCTCCTTTTCCTTCCTGTCCTCTTGCTGTGAACATGCATGCTATCCTAAACAGTACTTTTGGAAGAAGAGACAGCCCATGAGATGCTTCTAACCAAATGCCAGAGTGAGTTAGTTAGTCCAAGACTGTGAATCCATACACGCTCACAGGAGAGCTGACAGGAAAGGGTGGGTTTAGAGCTGCATTTGCGGAGCTGGATTAGGAAAAGGATCTGAGCTAAAAAGGAGGCTACGCAGATGGAGACGTGTGTGGGCCCGGTAGTCTGCTGCCCTTCCAGGCAAAACTCCTGCAAGACTCTCACTCTGGAATCAGGAAGAGGCTGGGCTAAAATGATGGGCCATCACCATGCTTTGTTTTTTGTTTGTTTGTTTTGTTTTGTTTTGTTTTCTCATTTAG
Seq C2 exon
TGTTACCAATCAGAATCAGAATTTCAACTGTGCGACCATTGGCCTAACAAAGACATTTGATGCTGCATCATGTGACATCAGCTACCGCAGGATCTGTGAGAAGAATGCCAAATGATCACAGTTCCCTGTGACAAGAACTATACTTGCAACTCTTTTTGAATCCATACAGGTCGTCTGGCCAATGATTCTTTTACTTACCTATCTGTCTACCAGTAGCGGTCCTTGCCCATTTGGGAAACTGAGCTTCTTTCTTCTGCACTGGGGGACTGGATGCTAGCCATCTCCAGGAGACAGGATCAGTTTTACGGAAACAACTCAGTTAGTATAGAGATGAGGTCCGCTTCTGTAGTACTGAGCATTTCTGACTGATCAAAAAGGCCTAGTCTGTTGACAGGGTTTGTTTTATTTTAGCCTCAGAGTATACCATACTACTAGGGAGTAACTGTAGAGTGAGAAATTATAAACATTATTTAGGGATTACCATGGTGGAAGAGGGATAAACATAGGTCCTGTGACTTCGTCTCTGTTCTCAAGGGAACCCCATTCACATGCCCCTCCTAACTCCACAAGCGAGGGTAGCAGAGGCTCTCCTCAGTCTGAACTAAGGCTTGGCCTTGGGGAGGGCTCCTAGTGCTGAGCTTGGAGCAGCACGGACAGCAGCATTGTTTATGGGAATGGAGAGAGGTCTGGGCAGGATAGGAACCTTCTTGGAGACCCCTTTGAAGAAAACCAGGCAGCCAAGGGAGCCAAACACACTAGATTTCTGTTCTTCAGCAAAGCCCTGAAGAGACACTTAAGCTAAAAATTCCCTTGTCATATTTCTGAAACTCCATTATAACATATGTAACTCCTTTGTAACCAAAATTTAGGTAAGCAGGCTTCCTTTGCTCTGAAGGTTTTGAGTACCTGGCTGTATTTGTTGAGTATTTTTAAAATTTTGGATAGTCTCTTAGGCAACAATAATCACAATATATTCATCCCTTCAGTTCTGGAGAAAGCCTGATACCAGGCACAGCCTACTGACCCCAAGGAGCCTGGCACTGATTGGCATCACATTGATCTAGAACTGGTCCAGCCGACGAAGAGTAGGAAAAGAGAAGGGCTGCTCAGGGAAACATTGGCTGGGGGCACGGAATAAGCACATAGTAAAAAGGGAACATCAGGGTCAAATGGAAATCACCTGAGACAGGAAACAGGGAGTTCATTTGGCCACACTGGAAGAAAGGCAAGAAAGAGGAAGACAAGTCTTGGAGTACCCTGGCTGTTCTCCACACTCACAAGACATCAGCTATATACTCTGCTTGGTGCATAAGAAAGAGAAAAGAGATGCCTTTTGTGTTTTGAGTAAGAATAATTAAACCATAAGGAAGACCATGTATAAAACTGATGGAAATAATAGTCACCAAAGTACAGCACATACCATTTTGTGTCTAATAACAATGTAGCACAGTAATGACTGTACATGTCATTGTATGTATACCAAACAAGATTGTTGTAAATCATATTTTTTATTACAACACTAAGTTCTGCTTCTGCATTCCTAGGTTTCATCATTTTTGGCTCCTTAGCATGGCCACTTACAATTTTTTAACATGAGATAACACATCAGGTGTCAGAACTTGCTTGAAGGGAATTACCAGAAGTAATTTGTGTTTGAGATGGGGTGGAAATTGGAATTATATTAGTAGCCGGTGGAGATACAAGTTCTCTGACTGTGTTGGGAAAGGATAAGTGCTACCGTTGAGAAGGGAAGAAAGGCTGAGTCTAGGTGGAGAAAAATATCAACAGAACTCTAGCCAAAGGCAAGCCCCAGAACTCAGACAACAGAAAGGAAATCCTAATCCTTCTGTTTTGAGAAGAGAGAACTGTAGTTGCTTCACTTCCTATTTCATGACAGAATAACTGCAAACTTTTAAGATCAGGAAATGTAGACATCTAGTGATTTCTTTAGTAGACAGTTTAATTTCCCCCAAGATTAGGAGACACTTCTGTGCAGGTTCTAAAAGGAGCCCAATGGCCTGGGGTGGGAGTGGGGAGTAGATAGGGAATATGTGGGATTTGGTTTAAGTTCATCATTGGAAGAGTTCCTGGATCCTTGCAAGCTTAGATAAATGTGATCTTTATTAGATAGCAGTGGCATGCTTTAAAAAAAAAAAAGGCAATGAAAATTTAGCAAGCCACTGAATTTGAGTTTTCACTTTGTTTCTAATATGCTGTGTGAATCAGTACAGTTTTCTTACCCTTTCTTGGTCTTAATTTCCTTACTGATAAAATGGGGTAGTAATACCTATCTCAAAAAATTATTGCACATATTAAATAACATTCCTCTATGTATCTCAATGGCATTAGACATTAGGAGAAGCATTTTGTGGAGGATTTGAAGTTGAGATCTTCATCCAAGAAGTAGCTTTTCAATTTGCTAGAAGCTTAATGTAGGCAAGCCACTTCATTTTTCAGAACTTGTTTACTCATTTATAATATGGGAATAAAAATTTGTGCAAGTCAGAGAAGGGTGCCTTAAAAATGTTGTGGCCAAGCCACATGAGATCAAAGACACACTTTTCATGACCTCAAATGTGGGCCCAGCCTAGGTCAGCCAACCCCCATCCAACCCTTAGACTCACGAACAAATCCACCTGAGATCAGCAGAGCCACCCTAGATCAGCTGAAACTCTAAGCACAAAAATAAAAACTTATCACTGTATACCACTGGAGTTTTCTGGTTATCTCTCGTATAGCAAAATCTAACTGATGCAATCTCCATCTGGCCTTCATCCTTCTCCCTTTATTGTCCTTTCGTGTATTGTTCATCCAGCAACCAGGATGATCTTGTTAAAACATTAAACAGATTCTGTCACTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090269-CLEC5A:NM_013252:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
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:
TCGTGAAGAGAAAAGGTGGCG
R:
GTCTCCTGGAGATGGCTAGCA
Band lengths:
343-1844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)