HsaINT0174144 @ hg19
Intron Retention
Gene
ENSG00000168026 | TTC21A
Description
tetratricopeptide repeat domain 21A [Source:HGNC Symbol;Acc:30761]
Coordinates
chr3:39167752-39169979:+
Coord C1 exon
chr3:39167752-39167881
Coord A exon
chr3:39167882-39169821
Coord C2 exon
chr3:39169822-39169979
Length
1940 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGTTTGTGTATTATTTCTAGGAG
3' ss Score
6.85
Exon sequences
Seq C1 exon
CCCAGGTTACCAGGCCAGATCGTGTCTCCACTTCTTAAACAAGTCGCCGTGATCTTGAATCCTGTAGTCAAAGCAGCACCAGCTCTGATCGACCCCCTGTATTTGATGGCTCAGGTCAGGTATTACTCAG
Seq A exon
GTGAGCGGGGGATCCTGACAGCCGGGTGGGGCCTTGCAAACACCTGATGTAGCTTTGTGTCTGCAGGCTCCTTGCCTAGGATACTACACACACACACACACACACACACACACACACACACACACACACACTCTCCTTGCCTGGGGTACTACGCACACACACACACACATGCATGCTCCTTGCCTGGGGTACTACACACACACACACACACATGCATGCTCCTTGCCTGGTGTACTACACACACACACACACACACACACGTATGCACACACGTGCACACACACACAGGCACATGATCCTACAGGCCTGCCCACTCCCAGCCTCCATTCCCTAGTAAGCTTCCTGACCTCTCACCAGCAGGGGTCTCTCCCACCTAGGCCTTTGTGGATTTACTCATTTGATCTGTGCTGGTAATAGTTATTGAACTTCTTCTGAGATACAGTAGTACCAAAAATAGGCAAAAATTCCCTCATGGAGCTTGCATCTAGTAAGGGGAAATTGACAACTGAATACAAGCTCCACGAGGGAGCACATCGTATTTTTTTGCTAGAACATGGTAATGCTATGGAAGAAGCTGAAACAGGGAAGTGATGCAGGGGTGGCAGGGTTGCGGTTTTGAAAAGGTATCCAGAAAGAACTTGTGGAGAAGTGAGAACCCTGTACCATGAGGCCTTCAGAGCCTCCAGGGGCCCTTTCACCTTCTCCCTTCTCAAGGCCCAGACCCTGGAGAGAAAGGGAAGGAGAGGGAAACTCTTCCATGGGTGCTCTATTGTCCTATCTGATGCAGAGTCCTCCCCTGAAGTACTGTCTCCCTGTGGCCTCTCACCCAATCCTGCCTGCCTGGAAACCAGGCTGATCTGTGGTGTTCTGGGGGTGTCCAAAGGGATCAGAATACTGTGGCCATTTGTCTGTCTTCTGGCATTGCATCGTGTGGGTTGCACTCCTGCTGAGAGCTTTCCTGTCTTCATCCTTAGTCCTCCCTATGTTCATTTGGGTGCCAGGTTTCCCCACAGCTTCAAGGTATCCTGGATACAAGGCCAGGGTGAGAGAACTTCCCCTGGGTGCCGGCATCTGCCAGCAGATTTGGGCCCAAAGCAGTCTCCAGCTGTGTAGGTTGCCATGGTGACCTCTTCACATTTCCACAGCACATAAGAAGGAGCAGGGAGCTTGGGACCCAGAAACAGGTGCTCCCTACCCACCAGGTTATGGATCCCAAGTAGGAGTTGTTGAGAGACCTGACTGCGAGGGAAGAGAGTGCCCCTACCAACTCATCACACCCAACCCCTAGGCTGCTGCTACCACCCTGAAAGTGCCAGCCTGTCTGCAGGGAGGCCCCGCAGCCCTCAAGCCCCAGGGGGTTCAGAGCTGAAGCTCAGGAACCCAATAGGCCTGGACGTAAATGCCAACTTCGCCCCTTCCAAGCCGAGTGGCTTATATCACTGGAGCCCCAGGTACCACATCTGAAAAGACAAGAACAATAGCACCAACCTTGCAGGGCTGGGCAAGTAATAAATCAGACTTTCTAAAGTGTTTTGCAAGTATTGAACATAGAGCAGGAGCTTCTTAAATTGTAACTATTATAGTTGCTGTTACTACTAGGTTTTGTTTGCTCTTAGGTGTGGGAATTGAGACTTAATGTGTTCCCCTGAGCTTCTGGATGGAGCTGTGAAGTGACTTAGCTATCTCCCTGAGGGTTACAGAGACAAGAAGGGTGTTGCACTGAGGTTTGAGTTTCCTGTCGTTTGTCTGAGTCAAGGAAACAACTGTGTAGTCTTAATTTTAGAAATGGACCCCTGAGTGAAGCAGAACAAAACTGGCTAAAATACTCAATTTTGTATATTTCTGGGGAACAGGACATGTAAAATTCATTCTGCCCTTGCATATCAGGTCTTAGGAGCCCTTGGGAACCCTGCATGTAGAGGTTTGTGTATTATTTCTAG
Seq C2 exon
GAGAGCTAGAGAATGCCCAGAGCATCCTGCAGCGTTGCCTGGAGCTGGACCCCGCCTCCGTGGATGCCCATCTCCTCATGTGTCAGATCTACTTGGCTCAGGGCAACTTTGGCATGTGCTTCCACTGCTTAGAGCTGGGTGTCAGCCACAACTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168026-TTC21A:NM_001105513:11
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF128952=Apc3=PU(1.2=2.3)
A:
NA
C2:
PF128952=Apc3=FE(61.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTTACCAGGCCAGATCGT
R:
CTGGAAGTTGTGGCTGACA
Band lengths:
286-2226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)