BtaINT0102840 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:104000936-104002774:-
Coord C1 exon
chr11:104002661-104002774
Coord A exon
chr11:104001056-104002660
Coord C2 exon
chr11:104000936-104001055
Length
1605 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACCCTGCCTGTCCCTCCCAGGGG
3' ss Score
9.9
Exon sequences
Seq C1 exon
GGCCCAACTGCCAGACCAACATCAACGAGTGCGCATCCAACCCATGTCTGAACCAGGGCACGTGTATCGATGACGTGGCGGGGTACAAATGCAACTGCCTCTTGCCCTACACAG
Seq A exon
GTATGGGCGGGGCCTGGAGGGCAGGGGCGGGGCCTGTGGTGTGGGCGGGGCCTGGAGGGCAGGGGCGAGGCCTGTGGTGTGGGCGGGTCTGGAGTGCAGGGGCGGGGCCTGTGGTGTGGGCGGCTCTGGAGGGCAGGGGCGGGGCCTGGAGGGCAGGGGCAGGGCCTCGGCAGGTGGCGCAGGTGGCTGAGGTGCAGGGCGGCCTTCCTGGGCTGGCCTTGTCTGCATGCCTCTGCAGGCACCCCAAAGGCCCTGCTCTGTGCTCCGAGCCTCAGGCCTGGCTGCGTTAGGGCCTTGCCCTGCAGGTGTCTTTGCTCATAAAATAACCAGGTGCCTGGGAGAAAATTTGAGCACAAGCAAGTCCCTACTTGGGGGACCTGCCTGGGAGGTGGCCCCCTTGGCGGGGGAGCTGGGCCTGGTCTGTCAGCCTCCCCGCCTGCTGTTCAGGCTGCCCTGGAGGTAGGGGGGCCAGGCTTCCCTCCCCATTGCTGGCCAGGCCTGAGGGAGTCCTTTGATGGCGGGCCCTCTTTGTGTGGGGAAACAAGGAGCCCTGTGTTCCTGCTGAGAGTGGCGGGAGACGGGTCCCTGGCATCTCAGCTGCTGCCATTGGCCCGGCCGGGGGAGGCGGGATGTGGGTCCCCTCCTGAGGAGAGATTTGGCAAGTACTAAAAAATGGAAGTCACACGCGCTCAGGCCACCAGGCCCCCTGGGGATGGGGCAGGGGGTGCTGCCGTTGGGGATGGTCCTGAGAGGCCCCATAGGCAGGGGTGGGGCCCGTGACTGCGGTTCTCACGACACCGGCGGCCTGTGGTCGAGCAGTGTTTTCTTTGACCGAAGCTGGGACCTGGACTTTCCTCCTCGGCCGGTGAGGAAACGCCCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTAAACAGGAAACCCCGCATTGGGCTCTCAGGGAGGAAAGGTCACCCAGAGTGCCGGGGTCCAGGCAGACTCCCGCTCCCACCCGGGGTCCTAACGCCGTGTCCGGTGCTCCCCTGATAAGCAGCCATGCTGAGGGCTGAGACTGGCACGTTCCCTGCAGTCACAGCCTTTGCTCAGGGGCCTCCCAAGATGGGCACTAGCCGCCCAAGGCACCAAACCCCTGGAATCAGCTCCCAGGCCACTGGCTCAGCGCAGGGCCCTTTGCCACCAGCAGGGCATGAGGCTGGGAGCCAGTCCAGGGCCCCTGTGACGTTGTGTGTGGGGGGGTTGTCAGGCCCGGCCCAGCCCTTGCTCCTGGCACTATTGGGGGCTGGGGTCCAGGCCATTCCCCCAGCCTGTGGGGCCCCAAGTGTTCCCCTGGTTCACATTCAGGCACTCACACAGCCAGGGGCCCGGTGCCCCGCTGTGTGTACCCCCCGCCCCCCACGCAGGGCAACCAGACGTGCTTGGACGGTAGAACCCCCTGTTGATGGTGGCTGCCGTGGCCTCTGTCAGGATGTGCCCAGGGCGTTGACCTCTGGCTGGGGCTCCTGGGGGGCTCACCACCCTGCCTGTCCCTCCCAG
Seq C2 exon
GGGCCACGTGTGAGGTGGTGCTGGCCCCATGTGCCCCCGGGCCCTGCAGAAACGGCGGTGAGTGTCGGGAGTCAGAGGACTATGAGAGCTTCTCCTGTGCCTGCCCCGCGGGCTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:15
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(6.5=5.1),PF0000822=EGF=PU(90.3=71.8)
A:
NA
C2:
PF0000822=EGF=PD(6.5=4.9),PF0000822=EGF=PU(90.9=73.2)
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:
CCAACTGCCAGACCAACATCA
R:
CAGGCACAGGAGAAGCTCTC
Band lengths:
214-1819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development