BtaINT0102850 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022799 | NOTCH1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MSM3]
Coordinates
chr11:103994360-103995962:-
Coord C1 exon
chr11:103995850-103995962
Coord A exon
chr11:103994932-103995849
Coord C2 exon
chr11:103994360-103994931
Length
918 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGT
5' ss Score
9
3' ss Seq
CCACGTGGCCCCTCCTGCAGGGC
3' ss Score
8.19
Exon sequences
Seq C1 exon
GACGCCGCTGCGAGTCAGTCATCAACGGCTGCAAAGACAGGCCCTGTAAGAATGGGGGTAGCTGTGCAGTGGCCTCCAACACGGCCCGTGGGTTCATCTGCAAGTGCCCAGCG
Seq A exon
GTAGGTGCCATGGGCAGCAGATTGTGGGGAGGGCTTCTGGTCTGAAGGGGGCAGGAGGACACCCCCGCTCAGCACGCCTAGTGCCCTGGGGTGGCCAGAACTGCCCCGCCGCCCCCCGCCCCCAGCCTGCGGGTGAGCTGGAAGGCAAAAGGTGGCGTGTGTCTGGACTCCACTCTCCGTGTTCCCCTCAAGACAGTTTTTCTTGTGTCTTTATGTTTAGAGCGGTTTAGTAGAAAATTGGTGCAGGAGGGTTCCTGTGCACCCTCGCCCCCTGCACACCCAGCTTTCCCATTATTAACATCTTGCTCGCCTGTGGGCTTCCCCGGTGGCTCAGACAGTAGAGTTTGCCTGCAGTGCGGGAGGCCAGGCTTCGATCCCTGGGTCAGGAAGATCCCCTGGAGAAGGAAATGGCAGCCCACTCCAGTATTCTTGCCTGGAAAATCCCTCATGGACAGAGGAGCCTGGCGGGCTACAGTCCCTGGGGCCACAGAGAGTCGGACATGACTGAGTGCCTTCACTTTCGCTTTCTTTTGCATTTGGGGAACACTGTTACCGTCAACGACCAACATTAACATGTTGCTAAATGACCTGTACACTGACACGCTCAGTTCAGTCCACTCCACGTCGTGTGTTCCTGGGCTCTGACACACCCGGTGCTATGAGAGCCCTGTTGCAGGATCCCAGGAGGCCGTCAGTTTGCCCAGAAGTGCCCCAGGCTCCTACTGTGCCCACCCCTCCCTCCTTCCCTCCCGATTCCTGGGAACCCCCCCACCCCCGAGTGTTTCGTGTTGACTTTCTTTAAAAGGAAAGCCCGCCAGCCCTTGTGGGTGGGTGGGGGACGCAATGGAGCAGCCAGGCGGGTCCCCAGCACTTGGGGGTGCCGGCTCACCCCTCACACCCACGTGGCCCCTCCTGCAG
Seq C2 exon
GGCTTCGAGGGCGCCACGTGCGAGAACGACGCCCGCAGCTGCGGGAGCCTGCGGTGCCTGAACGGCGGCACGTGCATCGCGGGCCCGCGCAGCCCCACCTGCCTGTGCCTGGGCCCCTTCACCGGCCCCGAGTGCCAGTTCCCGGCCAGCAGCCCCTGCGTGGGCGGCAACCCCTGCTACAACCAGGGCGTCTGTGAGCCCACCGCCGAGAGCCCCTTCTACCGCTGCCGCTGCCCCGCCAAGTTCAACGGGCTCCTGTGCCACATCCTGGACTACAGCTTCGGGGGCGGCGTGGGCCTCGACATCCCCCCGCCACAGATCGAGGAGACCTGCGAGCTCCCTGGCTGCCGCGAGGAGGCCGGCAACAAGGTCTGCAGCCTGCAGTGCAACAGCCACGCGTGCGGCTGGGACGGCGGCGACTGCTCCCTCGACTTCGACGACCCTTGGCAGAACTGCACGCAGTCCCTGCAGTGCTGGAAGTACTTCAGCAACGGCCGCTGCGACAGCCAGTGCAACTCGGCCGGCTGCCTCTTCGACGGCTTCGACTGTCAGCGCGCAGAAGGCCAGTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022799:ENSBTAT00000017746:24
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(6.1=5.3),PF0000822=EGF=PU(79.4=71.1)
A:
NA
C2:
PF0000822=EGF=PD(14.7=2.6),PF0000822=EGF=WD(100=15.7),PF0000822=EGF=WD(100=17.8),PF0006612=Notch=WD(100=19.4),PF0006612=Notch=WD(100=19.9),PF0006612=Notch=PU(15.0=3.1)
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:
TCATCAACGGCTGCAAAGACA
R:
CACAGGAGCCCGTTGAACTTG
Band lengths:
355-1273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development