BtaINT0102838 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:104002975-104004753:-
Coord C1 exon
chr11:104004561-104004753
Coord A exon
chr11:104003121-104004560
Coord C2 exon
chr11:104002975-104003120
Length
1440 bp
Sequences
Splice sites
5' ss Seq
CGGGTGCGT
5' ss Score
7.91
3' ss Seq
CCGTGTGGTCGCCTCTGCAGGTA
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGAGTATGTGTAACATCAACATTGACGAGTGTGCGGACAGCCCTTGCCACAACGGGGGCACCTGCGAGGATGGCATCAACGGCTTCACCTGTCGCTGCCCCGAGGGCTACCACGACCCCACCTGCCTGTCTGAGGTCAACGAGTGCAGCAGCAACCCCTGCATCCATGGGGCCTGCCGCGACAGCCTCAACGG
Seq A exon
GTGCGTCCTTGGAGCCCCGCCCTGGGGGGGGTGTGGGGGGAGCTGGCAGGTCTTGGGCGGAGCAGACAGGTGCTCCCCAAGGATGGGTCTGCCGTGGGAGCCCTGAAGGGTGCCATGCACGGGCGCTCGCTCGGCTCCTGGTCTGAGCCCAGCACTGCCCTCAGCTCCGAGTATGACCAGGGAACGCGTCTATGCCAAGGCAGCAGACCAGAGGTGAGATCTCTGAGAGTGGAAGGGGTGTCTTGGGTCATGTCTGAGCCCCTTTGGGCCACAGCTCAGTTGGTAAAGAATCAGCCTGTGATGCAGGAGACCCAGGTTCGATTCCTGGGTCGGGAAGATCCCCTGGAGAAGGAAATGGCAATCCACTCCAGGATTCTTGCCTGGGAAATGCCATGGACAGAGGAGCCTGGCGGGCTACAGTCCATGGGGTTGCGAGAGCCGGACACGACTCAGTGACCAAACCACCACTGAGCTTCCGTAAGGAGGCTGCGAAGGTCATCCGAGGCTGAGGCTGGGGGCCGGGGCCTTCTGTCCCACCCTGCCCGCCGAGGACGGGAGAGGGGCTGCAGGGCAAGTTAATCACCAACTGCCAGTGATGTATTCAGTCACGCCTGTGTGAGGAAGCCTCCATAAAAAGGCCAAGTGCGGGAGTTCAGAGAGCTTCCGGGTTGGCGAACAGGTGCTGGGATGGGGTGGGGACCAGCTCTGAGCCCTTCCCCATCCCTGGCCCCGTACGTCTCTTCCGTCGGGCTGTTCCAGGTTTCCCTGCTTATAGTAAACCGTTGATCTAGTAAGTCAAACAGTTTTTCTGAGTTTTGTGAGCCGTTTCTGCAAATTTCAAAGGAAGAGGTCTGGTTTCTGGCTGTTTGGTCAGAAGTAGAGGTGGCAACTTGGGGCTTGGGGTTAGTGTCTGACCTGGGGCCAGTCTAGTGGGTCCCATTCCTCGCTGGGGGGTAGAGGGCAGTCTGCGCTGACTCCAGGCACTTAGGGCCAGGACTGGGTTGCGGGACACCCAGCTGGTGTGGGAACCCCGCCCATACATGTGGTGCCAGAACATTAGAGTGTAGAGAAGCTGACTTTTAGTTTCCGACACCCACTACGTGCCTGGCATTGGCTCTATCTAAATGGGGTGATGGACATGGCAGGGACCACACGCCCTCGTTTTGCACAGAGAGGGTAAGCAGCCTGTTCAGGGTCAAGCAGCAGGTGAACAGTGGATGGTCTCCTGACCACTGCTCTGAACTGGGCACTGTCCCAAACCCTGACCACCGTCTTAGTCGAGGTGGGCTATTTAAAGTCGTTTAAAGGACTCCAAGGGTCAGAGCGGGCCAGTGTCTCCATCTAATCAGGTCGTAGGACGGTGGCAGAGTCTGGGTTGCTCCCAGCCTAGGCCCCGCCCTCTCTGGCTACACCTGAGCCGCCGTGTGGTCGCCTCTGCAG
Seq C2 exon
GTACAAGTGTGACTGTGACCCCGGGTGGAGTGGGGCCAACTGTGACGTCAACAACGACGAGTGTGAGTCGAACCCCTGCATCAACGGGGGCACCTGCAAGGACATGACCAGCGGCTACGTGTGCGCCTGCCGCGAGGGCTTCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(3.4=1.5),PF0000822=EGF=WD(100=58.5),PF0000822=EGF=PU(53.3=24.6)
A:
NA
C2:
PF0000822=EGF=PD(43.3=26.0),PF0000822=EGF=PU(90.3=56.0)
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:
TGTGTAACATCAACATTGACGAGTG
R:
CACACGTAGCCGCTGGTCAT
Band lengths:
310-1750
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development