RnoINT0147930 @ rn6
Intron Retention
Gene
ENSRNOG00000015970 | Tbc1d13
Description
TBC1 domain family, member 13 [Source:RGD Symbol;Acc:1591937]
Coordinates
chr3:8707316-8709263:+
Coord C1 exon
chr3:8707316-8707398
Coord A exon
chr3:8707399-8709103
Coord C2 exon
chr3:8709104-8709263
Length
1705 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
CAGCTTTTCTATTCCAATAGGAG
3' ss Score
7.02
Exon sequences
Seq C1 exon
CCCCTGAACCCAAACCCTGACAGCAGGTGGAACACGTATTTTAAGGACAACGAGGTGCTATTGCAGATTGACAAAGATGTCCG
Seq A exon
GTAAGAGGCTCCCAGGGGCCTTCTGCTGCTGGAGACCTGCTTGGGGGGAGGGGGCCACTGTACCGATGTGGAGTGGTGCAAAGGAGTGCTGGAGCCTTTGTGTCTGGTTTAGTCGCAGCCTCCAGTTGACTATTTGACCTTGTGCAGGTGACCAGGCTCTCATACATACCTTACCGGGGAGTAGAGGCGAGATGGCTGAGGTTAAGGACATGTCCCATATGGGAATGCTATGCAAGCTGTGCGACAGTGGCCCTTGAAGAAGGTCCCTAGGAGCCAATCCCTCTCCTCACTGAGCCGCCTGCCTGAGTCCTCTCTGGCACCCGCTCCTTGTTTAGACAGGAAAGTCATGCAGAGCTCACTCAGCGGTGTTTCAAGGAATCTCTCCCGGGCCCAGCTCTGCCTGCACCAGCACAGGCCAGCTGCACTATGTGAGGAGGCCTGGAGGCGTACGAGAGGAGTCAGATACTCAACCTGGCAACACAGAGGGCTGCGAAGGTTCCAAGTGCTGTGGGGGAAGAAAAGCCAGTGGTCTGAGAAAACAGGGCTTTTGAGGAGGTGACTCAGCAGGAGATGGCAGTCGTGAGGAGAATGGGAGGCACAGCTTTGTGGAAGAACTTTCTAGCCTAAGGAACCATGCAGGAGTACCCAAATGAGTGGGACACCATCTACAGGACGATCCTCCCCTTAGTCTCCTGAGTGCTGCTTCTCTGTCCGGATCCCCTCCAGATACCCTCTGGATGCCAGTCTGAGCAGAAAAGTGGTAAGAGACTGGTGTTGGAGTAGACCTACCTGTGATATGCTGTAGGGCAGGTGTAGGTCAAGAGTTCCATCCTGAAATAGTTCTGTGGAGGATTAGGGGCTCAGGTTCTGTCTCACTGGTGACGGCAGTAGGTCGTCAGTGTTTCCCGAGGCCAGTATGCAGTGCTGGGCCCTGGATGTCTGAGTGCCGTGCTCTGTTGTGCTCCAGATCCCAGCTGGCCCCTGATGTTCCGTGCACATCTCTCCCTGTCAGCGGAGGGTGCTCTGTGATAAATGACCATGGTCCATCCTTCTGTGTAAACATGCATCTAGAGACAGGTGCATGGAAATACATGATTTAGGGGGGTGGGTATTGAACCCAGGACTTGACTCCTTATATACAGTGCATGCCGGGCAAGCGTTCTACCAGCCAGCTATATCCTTAGCTCCTAGACAGGTGCCTTTGTCATGGAAAGGTATTTGTGGTTTATGGGAATCAGGCTGTGTGCCATAAAAACACTTAAGAGTATTTACACACGTGTTCCTCTCCACAGACACATATGAAGTGACCGTACATATGCCATTTCTACTGCCTTTTTAAAAACTGCGTCTCTTGGGATAAAATACCATTATTTTAGTTTTTTGAGATAAAGTCTCACACTATGTCAGGGCTGGTCTGGAGCTCACTTTGTAGCTGAAGCTGGCCTTGAACTCAGAGCAATCCTCCTACCCTAGGCCTCCCAAGTACTTGATTATATGTGTGAGCCGCCATACCTGGCTGTGACGTTACAATTACAAACAAGCAAAGAGTCGAAGGGGCGGCTCAGTGGTAGAGCACTTGTCTGACATGGCCTAGGTTAGTCCCCCAGCACTGTAAAATAAGTAAAATCACCCATTCCTGAGGATACCTGCGGCTGCCGGGCTGGAACCTCCACCCTGAATGATAGCAGCTTTTCTATTCCAATAG
Seq C2 exon
GAGGCTGTGCCCAGATATATCCTTCTTCCAAAGAGCCACTGAGTACCCCTGCCTCCTCATCCTGGACCCGCAGAATGAGTTTGAGACCCTTCGTAAGCGTGTGGAGCAGACGACACTGAAGTCTCAGACGGTGGCCCGGAACCGAAGCGGGGTCACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015970:ENSRNOT00000021431:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.296
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:
CCTGAACCCAAACCCTGACAG
R:
ATTTGTGACCCCGCTTCGGTT
Band lengths:
241-1946
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]