RnoINT0157498 @ rn6
Intron Retention
Gene
ENSRNOG00000050650 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:RGD Symbol;Acc:2318922]
Coordinates
chr3:11799612-11801437:-
Coord C1 exon
chr3:11801359-11801437
Coord A exon
chr3:11800464-11801358
Coord C2 exon
chr3:11799612-11800463
Length
895 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CCCTCGACACCCTTTTCCAGTTA
3' ss Score
6.08
Exon sequences
Seq C1 exon
GTGAGGAAGATCCCTCGCAAGAGAACATCCCTGACAGACAGCTACGTGGACCAGACCTCCTCAGGTTCTGTCTTCAGCA
Seq A exon
GTAAGTCCTTGATGTTCCTGCTAAGCCTGGAAGAAAGCACCAGAGAGGCCAAGTACTGATCATGACCTTTGGTTCTGCCCAGGATTGCTTTGTCCCAACCTCACAAGGGATGTGGTGGGGACTTGGTGGGATGATAGCCAGCACAGGGCAGGGACCAGACACCCTCAGGCCCTTTCCGGCTATTACTATTTCTGCCTCTCCCTCCAAAGCCCATCCTTTCTCTCTGCTCCTCACTATGTTCCTGAACTAAGCCACAAACCTCATGCATATCCAACAGGTTTTGACTCCCAATTTTGCTATCACCAGCCAGGAGGGGATGAAAGGGCAAACAAAGCAAGGAGGCTGCCCCCCAGCGCCCCCTGGAGAGAAAAGGCTGTTCCTGGTGCTCCTTGGTGCAGGGGGGCAGTATTAGTTCCCCTTCCTTTCATCCGGTTATCACCCCCTAAAACTGTGATGGCCCAAGTGCCCCGCAGCAGGCCTGTACCAACCACTAGTGATGGGGATGAGTAGCTCGGTCCTGGCCCCAGGAAGTGAGTCCTAAGTCAGCTGGAGGGAGCAGCCAGCCGGGCAAATGGGAGTGGGGCTTAGAGGGCAGAGTGTGATTAGACCTTTAGAGGGGTCAGAGTAGGCTTCGAGGAACTGAAGGAAGAGTTAGAATCAGCTGCATGTAAGAGGGATTGGGGCAGAGTTCAGAGGCCTGTGGGAGAACAGGGTTGGGGAGAACCCAAAGAGAGGGCAAGCTGGGTCAGTGGGTCACCCACAGCCCAGACACATGGAGAAGGTGGGCCTGGTGGGAGTCGGTAGACCTCAGGGTTGTGGGCTGGAGGCTGCCTGGAAGCTCTGTCTTCTCGGAGCTGCCTAGAGGCCAATGGCTGCCCTCGACACCCTTTTCCAG
Seq C2 exon
TTATGAGCATCAGCACATCAGGGCCAGAGATGTCAACCAGCCGGGAATATATGAGCACTTCTCACACACCTATATCATCCTCCGAGTCCATACTGCCAAAGCCTCAGAAGCCTCAGTCCTCAGGACCCAGGACAAAACTGGAACTGACCTGGGGCCCCAAGGTCATCGAGGTGGTTTCAGAGTACCTAAACCAGAACGTCACTGAGATCACACCTGTTTATGGCAAAAAGGGCTCCACCAAAAACGCAGGGGCCACCCATGACCCAAAACCAAAGACAGAGGCTCCCAAGGGTCCCAGGAAGAGCACCAGCAGGCAAGAAGCCCTTGAGCGCCCAAAGCCTACCAAGTCCAGGTCTTCCCTGATCCTAAAGGAGAGAGTAAGAAGGGCTAAGGCTGTTCGAGCCCAGGGCTGGAAACCCAAGACCTGGAGCAGCAGTCAGGTACTAACAAAGAGTTCCAGCACAACCGTCCATGACAGTGGTAGGAGCCTCAGTAGTGCCAGTGAGCCCCCGAGCCAGACTCCAGAGGCCAGCAAGGATGGTGATGACTCCTCAAGCTTCACTGAGAGCACATCAACACATCTGAGCAGTGCTGAAAGCTTCACGGAACTGACTAACCTTTTATCTCAGGAGCCTGAAGAAGACCGAGACTAGCTCACCTCTGGCCATTATACTGCTCCCTCAGAGAGCCAGTTGAAGCCCGTGCTGAGCAGTGAGCAGACGCAGCAAAGCTGCCTCCTCCCAGGACAGTGAGAAACCTTGGTCAATGTTCCAATACCATGGCTAAGTTTATTATCTCTGCTCTCTTCTCATACAAAATTAAAAACTTTGAAAGCCAGGCCCAGGTGGCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050650:ENSRNOT00000071233:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.926
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ATCCCTGACAGACAGCTACGT
R:
TTGGGAGCCTCTGTCTTTGGT
Band lengths:
342-1237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]