BtaINT0145415 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012480 | TBC1D13
Description
Bos taurus TBC1 domain family, member 13 (TBC1D13), mRNA. [Source:RefSeq mRNA;Acc:NM_001206715]
Coordinates
chr11:99302650-99304613:+
Coord C1 exon
chr11:99302650-99302732
Coord A exon
chr11:99302733-99304453
Coord C2 exon
chr11:99304454-99304613
Length
1721 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TCTCCTGTTTCCCCTTGCAGGAG
3' ss Score
13.28
Exon sequences
Seq C1 exon
CCTCTGAACCCCAACCCTGACAGCCGGTGGAACACGTACTTCAGGGACAACGAGGTGCTGCTGCAGATCGACAAAGATGTCCG
Seq A exon
GTGAGCAGGGCGCTGGGGCGGGGAGCCAGCCCTGTGGCTTCTGGGGGTTTTCCGCCGCTTCTGCCCTTTCCCAGCCCAGCCCAGCCCAGCCCCACAGGGAGGTGTCTGAGAAACTGCTGGGGAGTTGTCCCTGTAGCTGAGTCCAGGCCATAGGCACAGCAAGCCTGGCGAGGTGCAGCAGTGTGGGGCGCTGGTGGTGGCCTGAGTGCCCAGCTCTCCTCGCCCTGCCTTAGTGTCACTTGTAGCCCAGGCACCTGTGGATTCATCTGCTCCTTCCTTCACCAACTTCTGAGGCCCTCCTATGTGACAGGCTCAGTGCCAGGCTGGGGCGTTGAGCATGGAATAGACAGACAGGGTCTCTCTCCTTAAGGAGCTTAGAAGCTGAGGGGGAAGATGTGAAGACAAGACGTTCAACAAAATGGATCTTCCGTGTCACTAACACTTGTGGTGACTGCTCTGAAGGCAGAGTTCAGGGTGCTTCAGGGCAGTTGGGACGTCTCGCCTGAGGAAGCAGCTGAGATTCTGAGGAGCCTGGGGGAGTGGGGGAAGGGAGGGCTGTGGTACCTCCCAGGGGAGGCCCTGAGAGCCTTCAGAGCTGGGCCGTCCAAGGAGCGGTGCGAAGGCCAGTGTGCCTGAGGCCCAACTGGAGGCAGGCGGGGGTCAGACCTTGGACTTAATCCCAGGGACACGGGGCGGTCTCCCAAAGGCTTTAAGCAGAGGAGTGACAGGGTCAGAAAGTGATTGCGAGCTATACCGTGCGCGCGCTGTTCCTCTTGGTAGGGACGTGTGGCCACCGGGGTGGGCATGGCAGCAGGTGACTCCCACGTGGCTGGGTGAGGAACCGGGGGCCTGTCTGCAGTGGCCCAGTGGTCAGAGCTTGGGTTCTAGAGTCTGTCCGTCCTCCTCCCTTTCTGCCCCCGCTGCTTGTCAGCGGTGTTACCAGCCCTTCGCTACCCGGGGCTGCTCCTCCCCTGTGCTCACTGTGCCCAGGCCTGCCTCCCTGCCCCCGCCAGACAGCCCCCGTGGGACCCCAGCCCGGGGTGCTCAGCCAGGGGGGACAGTGGGTCTCTTGCCTCCTTCCTTCTCAGGCTGGCGTTGGGGAGCCTCTACCCACGAGGTGTTTCATCGCCCCGTTTTAAGAAGGAACCACATCTTGAACCCAGATCTGGGCAGACAGGTTCTTAGCCTGGCAATGACTGTAGTGCGTTGTTCAGTGTTCCTGGAGGGCGGGTTTGCAGAGAGCTTCAGCTGAGAAGTCTGTGTGTGCGCCGCCATACATACACTTTAAAAACTTTCACATTCTAGAGACCGTCTCCCCATGTGATTGTTTCTCTGTCTCCCCAGCTGTGTGGTATTCCATTGTACAATTTATAACTTAATGAAACCTCTATTACCATTTTTAGCCACAGTACAAACAGTTCATACTCTTGTACGTATTATCTTTTCGACATGGAAAGTTGTTCGTGGTTTAAGAGAAGAGTTAGACTGTAAGTTTCTAAGGACACTTAAAAATATATGTGTGTGTGTCTATTTGTAAGCATCCATACGATGTATGGGTGTGTACACATATACGATGACTGCATTGCTTTTGAAGTACAATGCTACTAACTTACACACACACAAAAGGCTTTGGGGAGGCTGGGACACCTGGCAGCAGAGGGCCGAGGAGACACCTCAAACCCTCTAGCTGAGGAACGGTCCTCTCCTGTTTCCCCTTGCAG
Seq C2 exon
GAGGTTGTGTCCAGACATATCCTTCTTCCAGAGGGCCACCGAGTACCCCTGCCTCCTCATCCTGGATCCTCAGAATGAATTCGAGACCCTTCGTAAGCGGGTGGAGCAGACGACCCTGAAATCCCAGACGGTGGCTCGGAACCGGAGCGGCGTCACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012480:ENSBTAT00000016559:6
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=0.278
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGAACCCCAACCCTGACAG
R:
ATTTGTGACGCCGCTCCG
Band lengths:
241-1962
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development