HsaINT0060820 @ hg19
Intron Retention
Gene
ENSG00000213185 | FAM24B
Description
family with sequence similarity 24, member B [Source:HGNC Symbol;Acc:23475]
Coordinates
chr10:124608610-124610066:-
Coord C1 exon
chr10:124609940-124610066
Coord A exon
chr10:124608956-124609939
Coord C2 exon
chr10:124608610-124608955
Length
984 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TGTGTGTGTCTTTTCTCAAGAGC
3' ss Score
6.65
Exon sequences
Seq C1 exon
GTACATCGAAGTCTTTTGACCTCCATACAGTGATTATGCCTGTCATCGCTGGTGGTATCCTGGCGGCCTTGCTCCTGCTGATAGTTGTCGTGCTCTGTCTTTACTTCAAAATACACAACGCGCTAAA
Seq A exon
GTGAGTCACAAGTTCAAAATAAACAACGTACTAAAGTGAGTCACATGGGGAAAAGGGGATAGCACTTCCTCAGTGGGATACCTGGGCTTCCTGTTGGAGCAAGGTCATTCCTTGCTGCTGTGGCCATACCCTGGGTGAAGTCAAGAAGAACAGGCAGCTTTGTAAAAGCAAAGACAGCTGAGTGTAGAATCTTATTTTTTTTCTTCCTGGCTGGGGTTGGTAGAATGTTCTCAGCTTTGGCCTGTGAGTGTCAGCGCTGCTTGGCTGTCACTGGACCTCACTAAGTTTACCATCAGGTGTTTAATTCAGCACCTTGGCCAAGACTCCCTCTGTCCTGGGCACTGTAGGCTGCAGATTCTGTGGGGGAGGCTGCATGAACGAGCTCTGCCTTGTGCTCATGTGGAGGACGGGCTGGATTGATCTCTTCTTGCCTGAATTGGGAGCTCTCAGGATATTCCTCCATTTGTTTCTGGAGGCCTTGGGGAAAATGACTGGGGCTCTAGATCTCAGGGACAGCTGAACCGTGTGAAAAACCTGGGGAACAGTGGACAAGGGAGGGTAGGTCAGATAAGATTGCATTTTGGGGAGAAGACCCTTTAAGTACCAGAGAGATTGGTTGTCAGATGCAATTGTGTCCCCATTCTAAGGAGTTCACAATGGCACATCCCGGAGCCTGGGACACAGCCAAATGCAGCACCTTCCCATCATTCCTGCATCTCGGGGGCCTGCAGTGACCAGTTGGGTGACCTTGCTTGCAAAATCACTCACTCTTGCTTTTGTAACCTCAGTTTACATTTATAGCAATCATAGAAGAGGAAAGGATTCGAGAGGAACTTGGGATGGGGGAGAGAGCTTTAATGTAGGGCTGGTGTTCATGTTTGACTGGCTTCAGCACTAAACTCCCCAGATACCCCCCAACAGTTCTAACAAAAGGGCTGAGAAGAAAAATTCTAAGCCTGTGCTTTGTGTGTGTCTTTTCTCAAG
Seq C2 exon
AGCTGCAAAGGAACCTGAAGCTGTGGCTGTAAAAAATCACAACCCAGACAAGGTGTGGTGGGCCAAGAACAGCCAGGCCAAAACCATTGCCACGGAGTCTTGTCCTGCCCTGCAGTGCTGTGAAGGATATAGAATGTGTGCCAGTTTTGATTCCCTGCCACCTTGCTGTTGCGACATAAATGAGGGCCTCTGAGTTAGGAAAGGTGGGCACAAAAATCTTCATGAGCAATACTTCTTAGTAGATTGTTTTGTTATTCAAATCAAGTTCTAGTGTTTTTATGTGAGATTATATAATTTACAGTGTTGTTTTATATACTTTTGAATAAATGTACACTATTAAAAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213185-FAM24B:NM_152644:3
Average complexity
IR-S
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:
PF150691=FAM163=PU(32.3=96.8),PF151931=FAM24=PU(12.3=29.0)
A:
NA
C2:
PF150691=FAM163=PD(66.7=95.4),PF151931=FAM24=PD(86.3=96.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
GTCTTTTGACCTCCATACAGTGA
R:
GCTCATGAAGATTTTTGTGCCCA
Band lengths:
344-1328
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)