HsaINT0067769 @ hg19
Intron Retention
Gene
ENSG00000136895 | GARNL3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:HGNC Symbol;Acc:25425]
Coordinates
chr9:130152920-130155828:+
Coord C1 exon
chr9:130152920-130153046
Coord A exon
chr9:130153047-130155361
Coord C2 exon
chr9:130155362-130155828
Length
2315 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CAGTGACTTTTCTCTTCTAGGAT
3' ss Score
10.21
Exon sequences
Seq C1 exon
GCCTCTCGGATGAAGGTGGACCCAAGTCAGAAGGAGCGCCAAAGGCCAAATCAAAACCCCGGAAGCGGTTAGAAGAAAGCCAAGGAGGCCCCAAGCCAGGGGCAGTGAGGTCATCTAGCAGTGACAG
Seq A exon
GTAAAGAGAGGGAGAGGCCCCTGCTTGGGGTGGTGGACCTATGAGTCACAGCACTGCCCAGGAGGCCCCTTCTGGGGATTGATAATGCCACTAGTGGCCCCTGGCAGCTACAGCAGAGGGCCAGCAGCCTGTTCCTCTCTGAGGGTCCCCAGACCCTCAGGCCTGCCAGGGAGGGATCTAGACAAATGGGCACACTTACCAGCAGTCAACTGCTAATTCAAATCTATTGAGACCTGGCCAGGCACAGTGGCTCATGCCTTTAATCCCAGCAGTTTGGGAGGCCAAGGCGGGCAGATCACCCAAGGTCAGGAGTTCGAGACTAGGCTGGCCAACACGGTGAAACCCCATCTCTACTAAAAATACAAAAAGTAGCCGGGCGTGGTGGCACATCCCTGTGGTCCCAGCTACTTGGGAGGTTGAGGCAGAAGAATCGCTTGAACATGAGAGGCGGAGGCTGCAGTCAGCCAAGATCGTGCCACTGCACTCCAGCCTGGGTAACAGAGCAAGACTTCATCTCAAAAAATATATATATAATATATATTTTATATTTATATATTTAATATCTATTATATATATATGTAGAGAGAGAGAGACTTTTTCCTCACCAGATTGACAGAGAGTTTTTAAAATAAAAATGCTGGCTAGGCATGGTGGCTCATGCCTGTAATCCCAACACTTTGGGAGGATGAGAAGAGAAGGTCACATGAGCCCAAGAGTTCAATCCCAGCCTGGGCAACACAGCAAGACCCATCTCTACAAAAAAAAAATATATATATATATATATAGGCTGGGTCTGGTGGCATGAGCCTGTAGTCCCAGTTACTTGGGAGGCTAAGGTAGAAAGATCACCTTCCTTCTGGGAGGTCAAGGCTGCAATGAGCCATGATCACACCACTGCACTCCAGCCTGGGTAACAGAGCAAGACCCCGTGTCAAAAAAAAAAAAAAAAAACACTTAGTAAGACTGCAGGGAAACAGGTGCTCTCTATGCAGTAATGCAGTACTGGTAGCACATACACAGTCCAGCCTATCCGAATGCCAGGTCAGCATCACACGTCAATGAATAGTAGTTAAGTCACACTGATTTGTCCTGTAAGATCTCTGTTATCCTTCAAGCAACATCACACGTGCTCCAGTGTGGGGAGTGATAGTTCGTATGTCCAAGCTTCATTCATTCACTCAACACACATTCTTGGAGCACCTAGGACTTAGTTGGGTATTAAGATATGGAAAGGACTAAGCCCCCACCTGTGCCTTCAAGGGGTTCCCAGGCCAGTGGCAAAGACCAACAAGCGTCCAGAAAATGACTGCATTCCAGCATGGCAGGTGATGTGTAAGGAGGGTTGCCATCCAGCCCACACCTGGGGCAGGGAGGGTCTCAAACATCAGGGGAGGCTGAGCCTCCTCTCAGAAGTCATAACCTGACAAGGCCCCTGCCCTCAGGGACTTTGCATTCTAGTGTGGGAAAACAGACAGCCAACCTGTAAACAAGTAAGCAAATAAAATCATTTCAAATAGTGACAAGTGCTACAAGAAATTGAGAAGAAGTGACGGGGCTGGCACATAGAAGGTCTACTCTGAGAGAGGGGTCAAGGAAAGCTTTTTGAGGAAGTAGCATTGGGCTGGGCTTGGAATAAACGGTAAGAAGCTAGGGGAACAGCCCTTCTGACAGCAACTACCTCAGGGCAAGGGCCCCGAAGCAGGCCTAGCATGGCCAGTTAAAAGGCAGGAGGAAGAGTGGACAGGCTTGAGCATAGAGAACGGAGCCAGGAACTGTGTGAGGCCGAGAGTGGGCAGCAGCTGAGCCAGGTGGGCTTTTGCAGGCCAATGAGTATTTGTGGAATGCATTAACTCTCTGAGAAGTGGAAACCAATATTGGTCAAATTAATATGCAGCTATTGAGAGAGTCCTGAGGAGCTGGAGGAAACAGAGGGAGTCAGGGGTGCCCTGGGAGGCTGGAGGGATCACAGGCCTAGTCCCGGAACCTTGGCTATGAGTTTCAGCCTGATCCTCAGGCCCTGGGCACCCATGGGAGGGTTTTAGGCAGGATGACATTATCTGGATTTGCACTTTAGAAAGGTAGGTAAATAATGCCTCACAAACACCTTCCATGTGTCACACACTCGGCCTTTAATCCTCAAAACCCCCTGAGGTGATGGGGGTGGCATTCCAGCACTTCCCCACCTCTACCACATAACAGTGAGGGTTTGGTGAGCCAAACTCATGAGCTCAGATGAGCAGGAAATTGCCAGAAAAAAATAGGCCCAGTTCTGTGGTACTCCCAAAGATCCTCTTACAGTGACTTTTCTCTTCTAG
Seq C2 exon
GATCCCATCAGGCTCCTTGGAAAGTGCTTCTACTTCCGAAGCCAACCCTGAGGGGCACTCAGCCAGCTCTGACCAGGACCCTGTGGCAGACAGAGAGGGCAGCCCGGTCTCCGGCAGCAGCCCCTTCCAGCTCACGGCTTTCTCCGATGAAGACATTATAGACTTGAAGTAACAGAGTTGAATCTCATTTGCCATCTTTAGTTTTCTTATGGAGGTTTATACTCTTTAAACAGTTCTGATGTAATTTCTCAACAAAATGTGGCTTTTAGCCTGTCAGTGATCTATTGGACCAAACCTTCTGCACACTCGGCCAGTTCCCTCTCCAATGTCCGGTGCCATCTTTCCTGACCTTTGTTTCTTTCTGTTCAGGAACCATCAGTCCCCTTGTAATAAAGGTGGTAGATTTCATTGAGGTTTTAGATTGAAACTTTGAATAAATCAAAAATACTCATTCTTATTTACTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136895-GARNL3:NM_032293:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.965
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)