BtaINT0102860 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103986874-103989660:-
Coord C1 exon
chr11:103989563-103989660
Coord A exon
chr11:103988329-103989562
Coord C2 exon
chr11:103986874-103988328
Length
1234 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CCCCCGTCTGCTCCCCCCAGGAG
3' ss Score
10.4
Exon sequences
Seq C1 exon
GCAAGTCCGCCCTGCACTGGGCAGCCGCGGTGAACAACGTGGAGGCTGCTGTCGTGCTGCTGAAGAACGGGGCCAACAAGGACATGCAGAACAACAAG
Seq A exon
GTGGGCTGGCTGGCGCGACACTTCCCCTCTGCCACTCCTTCCCGACCGGGGGACCCCGAGCCACGACTTCAGCTTCTGGGCCTCGGCTCCCTAACCCGTAAAGTCCCAGGAGAAGCCCCGGGGAAACAGAGACGTGGACCCCGTAGTGGGTGCCCATGTGGTCGGCGCTCCCTGCCTCCCTCTGGCCACATTATCAGTCCCCTCCCGGGCCCAGGGCATGGGCAGCTGCAGCTGTCCCCCCGCCCCCATGTCACTGTGACCTGCGACCTCACCTCTGTCCTTGGCTGTCACCGGCCAGGGCGGGTTGACCCAGATGGTGCATGCTGAGCCAAGAGGCCGGTGGGCTAGGTGGGGGGCTCTGCATTGCCAGGCCCCCAGATGGAACGGTGGGTGTCCACCTTCTACACGTGGACCGCCTCCGGCCTCCCTCAGCCTCGCCGCAGTCTGTCCCTGCAGTCAAAGTGTGCTCTTTCCTTCCTGCCCAACCCCAGCCTGGCCCTGCGTCTCCTGCACTTGTCTTTGGGCTCCTGTGTCCCCGAACCCGCCCCTTCCTTCACTGACCCCTGAAGGGATCTCCTGTCCTGGGGGAGGGACGCAGGGGATGCTGTTGGGCCCGGTCACTTCTGAGTCTGCCATGGGGCAGAGGCATCATCCCACCTCCTTCTGGGGAGACAGGGTGACTGGCGTGACTGGGGTGACAGGACTGCCGTGGCAGGGCAGCAGCTGCGGCCAAGGCCACGTGTATGCCAGGCAGACACCATCCGGCCTCAGCCCACACAGCAGCCTCATGGGGCATACGTGGCATGTCCGCTGTACAGATGAGAAAACCACGCCCTGTGGACAGAGCTAAGATGTCAGGGTTCCTCGGGGACCAACTGGTGCCCACAGACACACTTTAGTGACCCTGAAGCCCCTGAAATCGTGGCAGGGTCTCCATCTGTGTGGTTTTGGAGGAGGGGAAGGGGGGGCACAGTCTGTTAGATTTCCTGTGGGGTCTCTGACCCCATGAAGGTGGATCCCCACTGGTTTAGAATATAGGATCCCACAGGTCCTCTGGGTCTTAGAAGATGCGTTTAAGGTGTTTTTGTTTGTAAGACGTAACAGTGATGGTAGGACTCTAGGGGGAGGGTTGAGATGAGGTGCCTCCCCTCCGCAGCAGGGCGGAGGCGGGGCTGACTGCTGGTCCATCTGGTGACTGGTGACCCCTGCACCTGCCCCCGTCTGCTCCCCCCAG
Seq C2 exon
GAGGAGACGCCCTTGTTCCTGGCCGCCCGGGAGGGCAGCTACGAGACCGCCAAGGTGCTGCTGGACCATTTTGCCAACCGGGACATCACAGACCACATGGACCGCCTGCCTCGCGACATCGCGCAGGAGCGTATGCACCACGACATCGTGCGGCTGCTGGACGAGTACAGCCTGGTGCGCAGCCCCCCGCTGCATGGCGCCACCCTGGGCGGCACGCCCACCCTGTCGCCCCCGCTCTGCTCGCCCAACGGCTACCTGGGCAACCTCAAGCCCCCCATGCAGGGCAAGAAGGCCCGCAAGCCCAGCACCAAGGGCCTGGCCTGCGGCGGCAAGGAGCCCAAGGACCTCAAGGCTCGGAGGAAGAAGTCCCAAGATGGCAAGGGCTGTCTGCTGGACAGCGGGAGCGTGATGTCGCCCGTGGACTCCCTCGAGTCCCCCCACGGCTACCTGTCAGACGTGGCCTCCCCACCCCTCCTGCCCTCCCCTTTCCAGCCGTCTCCCTCCGTGCCCCTCAACCACCTGCCCGGGATGCCCGAGACCCACCTGGGCGTCAGCCACCTGAGCGTGGCGGCCAAGCCCGAGATGGCGGTGCTGAGCGGGGGCAGCCGGCTGGCCTTCGAGGCAGGGCCACCACGCCTCTCCCACCTGCCCGTGGCCTCCAGCACCAGCACGATCCTGGGTTCGGGCGGCAGTGGGGGCAGTGGGGCTGTGAATTTCACCGTGGGTGGAGCTGCGGGCTTGAATGGCCAGTGCGAGTGGCTGTCCCGGCTGCAGAACGGCCTGGTGCCCAACCAGTACAACCCGCTGCGAGGGGGCGTGACGCCGGGCACCCTGAGCACGCAGGCTGCTGGCCTCCAGCATGGCACGGTGGGCCCGCTGCACGCCCCCGCCCTGTCCCAGGTGATGACCTACCAGGCCCTGCCCAGCACGCGGCTGGCCTCCCAGCCTCACCTGGTGCAGCCGCAGCAGAACTTACAGATGCAGCCGCCGAGCATGCCGCCGCAGCCAAACCTGCAGCCGCACCTCGGCGTAAGCTCGGCCGCCAGCGGCCACCTGGGCCGGAGCTTCCTGGGAGGGGAGCTGAGCCAGGCGGACATGCAGCCGCTGGGGCCCGGCAACCTGGCGGCGCACACCGTCCTGCCGCAGGACGGCCAGGTCCTGCCCACATCGCTGCCGTCCACGCTGGCCCCGCCCACGATGGCCCCGCCCATGACCACCGCCCAGTTCCTGACGCCCCCCTCCCAGCACAGCTACTCGTCCTCCCCCGTGGACAACACCCCCAGCCACCAGCTACAGGTGCCCGAGCACCCCTTCCTCACCCCGTCCCCGGAGTCCCCCGACCAGTGGTCCAGCTCCTCGCCACATTCCAACATCTCGGATTGGTCCGAGGGCATCTCCAGCCCGCCCACCAGCGTGCCGTCCCAGATCGCCCACGTCCCGGAGGCATTCAAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.785
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.8=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.6=6.2),PF119363=DUF3454=WD(100=13.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAACAACGTGGAGGCTG
R:
GGCTTGAGGTTGCCCAGGTA
Band lengths:
342-1576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development