HsaINT0007995 @ hg19
Intron Retention
Gene
ENSG00000116194 | ANGPTL1
Description
angiopoietin-like 1 [Source:HGNC Symbol;Acc:489]
Coordinates
chr1:178818670-178822088:-
Coord C1 exon
chr1:178821818-178822088
Coord A exon
chr1:178820452-178821817
Coord C2 exon
chr1:178818670-178820451
Length
1366 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCTGTATTTTTTCCTCAAAGGAA
3' ss Score
7.97
Exon sequences
Seq C1 exon
AAAGGGTTTGGAAACATTGACGGAGAATACTGGCTTGGACTGGAAAATATCTATATGCTTAGCAATCAAGATAATTACAAGTTATTGATTGAATTAGAAGACTGGAGTGATAAAAAAGTCTATGCAGAATACAGCAGCTTTCGTCTGGAACCTGAAAGTGAATTCTATAGACTGCGCCTGGGAACTTACCAGGGAAATGCAGGGGATTCTATGATGTGGCATAATGGTAAACAATTCACCACACTGGACAGAGATAAAGATATGTATGCAG
Seq A exon
GTAAGTATGAAAAACTTTCATTCTTTGTAGAATCATCACCTTCTATGCATTAAATAGAATCTACTAATATATATGCTACTAAAGTCTTTTCAAAAAGGTCAGTTTTGGTCACTGTGGCAGGAAATACAACCAACCTACTGAAAGAAATAGCTTTTAGGATTTCTTCTATAAGGCAATCCCAAAGTGTGATCTATGTGAAAAACAAAGTTCTGGGAAAAAAACACAAAGCAAAACAGAAACACATTAATCTGGAAATAAAATGCAAGTGCCTACAATTCATAACAAATACTAACTGAACACCTACCACGTGCCAGGCACTGTTGTAGGTGCTAGGGATATAACAGTGAACAAAGTTCCCGCCCTTTGGAGCTTACTCACTGGAGGAGAGACAAAACAATTTGTTAGGTGGGAATAAGTACTCTCAAAAATAAAACTGAGTAAGAAAATAGAAAGTGGTGGGCAGCAAGGCCTGGGATGGCAGCTATTTTATATGGGTTCGCCAGGAAAATCTGCTGTGAGAAAGCAACATTTGAATAAAGAGTCGCAAGAAATGAAGGATGCAAGCCATTTGGATACATGGTGTAAGAGCATTTCTTTGAGGGGGAAAACCAAGATGACTGTGACATGTGGCATAGGAATAACAAAAAAGCTTGATTCAAAGGGGAAATTAATATTTTCATTAGAAAGAAACAACTAGACCATCCACATAATTTCAAATTTAGTTTTCATATGCTTTTGACTTTTTAACCCAGGTTTCTTCTCGTCCTGATACAGAGATCCCCTCCTCCCCTCCACCCAACAATTCTCCCCCATCCCTGTCCCAAACTGGTTTTTCTCTCCAGCTGTATTTTGGCAAACAGCACACAGGTCTCTATTTTAACCAATTTTACACTGGTAAACGAGAAAAGAGGAGAGATAGACCATAACATATGTCTTATTTACAGAAACCCATTTGACTGCTGGTTTTATTTTACTTTGTATTATTTTTTGCTATTTTATTTTGACAATTCAATTTTCCTCAGACTTTTATCTTCTTCTGTATCTTTCCTTCCCAATTTCTCCCTCTGTAACTCTTTCACATATAAACACTGCTTGCATCTACTCTGCTAACTAGAAAATTAAATCCCCCTTTTTAAAAAAGTACATTGTAAGCAAGCAAAGAGTTAAAAAAAGGCAATTCAAGTGATTTTTCAAGCAGTTGATGCAACAGCCATCAAGTAAGTGAAGGCATTTAAAACTGCTGAGATAAAGGTAACTGGGATTAGTAAGGGAAGTTCAAATTAAAGGTAGAATAAGTTTTTTATGATTGCAGAGTACCACACCTAGAAGAAACTTTTACATTTATATCTGTATTTTTTCCTCAAAG
Seq C2 exon
GAAACTGCGCCCACTTTCATAAAGGAGGCTGGTGGTACAATGCCTGTGCACATTCTAACCTAAATGGAGTATGGTACAGAGGAGGCCATTACAGAAGCAAGCACCAAGATGGAATTTTCTGGGCCGAATACAGAGGCGGGTCATACTCCTTAAGAGCAGTTCAGATGATGATCAAGCCTATTGACTGAAGAGAGACACTCGCCAATTTAAATGACACAGAACTTTGTACTTTTCAGCTCTTAAAAATGTAAATGTTACATGTATATTACTTGGCACAATTTATTTCTACACAGAAAGTTTTTAAAATGAATTTTACCGTAACTATAAAAGGGAACCTATAAATGTAGTTTCATCTGTCGTCAATTACTGCAGAAAATTATGTGTATCCACAACCTAGTTATTTTAAAAATTATGTTGACTAAATACAAAGTTTGTTTTCTAAAATGTAAATATTTGCCACAATGTAAAGCAAATCTTAGCTATATTTTAAATCATAAATAACATGTTCAAGATACTTAACAATTTATTTAAAATCTAAGATTGCTCTAACGTCTAGTGAAAAAAATATTTTTAAAATTTCAGCCAAATAATGCATTTTATTTATAAAAATACAGACAGAAAATTAGGGAGAAACCTCTAGTTTTGCCAATAGAAAATGCTTCTTCCATTGAATAAAAGTTATTTCAAATTGAATTTGTGCCTTTCACACGTAATGATTAAATCTGAATTCTTAATAATATATCCTATGCTGATTTTCCCAAAACATGACCCATAGTATTAAATACATATCATTTTTAAAAATAAAAAAAAACCCAAAAATAATGCATGCATAATTTAAATGGTCAATTTATAAAGACAAATCTATGAATGAATTTTTCAGTGTTATCTTCATATGATATGCTGAACACCAAAATCTCCAGAAATGCATTTTATGTAGTTCTAAAATCAGCAAAATATTGGTATTACAAAAATGCAGAATATTTAGTGTGCTACAGATCTGAATTATAGTTCTAATTTATTATTACTTTTTTTCTAATTTACTGATCTTACTACTACAAAGAAAAAAAAACCCAACCAATCTGCAATTCAAATCAGAAAGTTTGGACAGCTTTACAAGTATTAGTGCATGCTCAGAACAGGTGGGACTAAAACAAACTCAAGGAACTGTTGGCTGTTTTCCCGATACTGAGAATTCAACAGCTCCAGAGCAGAAGCCACAGGGGCATAGCTTAGTCCAAACTGCTAATTTCATTTTACAGTGTATGTAACGCTTAGTCTCACAGTGTCTTTAACTCATCTTTGCAATCAACAACTTTACTAGTGACTTTCTGGAACAATTTCCTTTCAGGAATACATATTCACTGCTTAGAGGTGACCTTGCCTTAATATATTTGTGAAGTTAAAATTTTAAAGATAGCTCATGAAACTTTTGCTTAAGCAAAAAGAAAACCTCGAATTGAAATGTGTGAGGCAAACTATGCATGGGAATAGCTTAATGTGAAGATAATCATTTGGACAACTCAAATCCATCAACATGACCAATGTTTTTCATCTGCCACATCTCAAAATAAAACTTCTGGTGAAACAAATTAAACAAAATATCCAAACCTCATAGTGGTATTATTCTTTGTTTTACCTGTGGTCATCTTAAACTGGTTTTTCAGTCCCTCTCCACTTCCTTCAGAACCAAAGAATCTGTTATAAGATTCCTGGAAGGAACTGGGCATCTAACTGTTACACCAAATCTTAAGTGAATAAAACTTTACCAAGGCTTCTCAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116194-ANGPTL1:NM_004673:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(41.9=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=PD(27.9=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAGCTTTCGTCTGGAAC
R:
TGGCGAGTGTCTCTCTTCAGT
Band lengths:
345-1711
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)