DreINT0105443 @ danRer10
Intron Retention
Gene
ENSDARG00000052094 | notch1b
Description
notch 1b [Source:ZFIN;Acc:ZDB-GENE-990415-183]
Coordinates
chr5:65037032-65039438:-
Coord C1 exon
chr5:65039325-65039438
Coord A exon
chr5:65037152-65039324
Coord C2 exon
chr5:65037032-65037151
Length
2173 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TTTGATTTTGTATCTTCCAGGCG
3' ss Score
9.74
Exon sequences
Seq C1 exon
GTCCCAATTGCCAAACGAATATCAACGAATGTGCCTCCAACCCATGCTTGAATCAAGGAACCTGCATTGATGATGTGGCCGGATACAAATGCAACTGTCTGCTTCCTTACACTG
Seq A exon
GTAAGAGATTTGACACTGCGCTATTGAGAATTTGAGAGGTGATTTAAAGCTTATTAGTTATAAATAAATCAAATATGAAATAAAATATAACAAAATAGGTTTAATATTTGTATTAGTTTAAGTTTATTTATGTAAAAAGCACATTTAAAGTGCCTGACCAAAGTGGTGTACATAAGACAGAATAATATTTAGTAGATAAATATAGAAAAAAAGATTAATATTTAGAAATAAAACAATAGACTAATGGGTATTTGTTTATCTGTATGCCATGCTACTGTAATGTGAATGCGGGCACTGACAACGGAGTTGAGAAGCCATGTGCAGTATTTATTGAACAAAGAATGGTCAGTCAAGCAATAGACGATCACAAGCAAACAGATACAAAGTCGTGGTCAAAGAACAGGGGAATAGTCTCTACAGGCAGCAATAAATCAAAACAAACAGACAAAGCAAAGGGTCAAAACACGACTAGGCTAAATATTAAAAAGAGCATCGTAATGCTCACAGACAAACAACAAGACTCAGCAATGTCTGTGTGTGTGTGTGTGTGTGTGCTGTATAAATAGTTTATGTAATGAGTGCTTAAGCAGCTTCAGCTGTGCGAGTTTGTAATCAGTCTGGATCAGGAACCGGTGTGTGTGCTGCATGCTTAAAGTTGTAGTCCATGTAATGGCGGATTTGTAGTCTGTTAGCGATCTGCAGCCCCTAGATCACTGATAATCGTAAGTTACCCCTAAAAATTTGTTGTCAAAATATTAAAATAATAATATATTTATTTATTTGTAATTTTTTTTGTTGCTATATTATTTTTTAATACTGACTAATTCTTGAAATATAATGTCGCCTAAAGCTTCCATTGACATTTTGATAGTTCAGACAGGTTTGAAACAGGAAGTTATGATTTTTTTTATTGTTTAATATTCAATTCAACTCGGAAACTCTTTACAATAAGGTTCCATTAGTTAATGTTAGTCATTGTATTAATTAAAATGAGCAAACAATGAACAAAACATTACAGTATTGATTCGTCTTTGCTAACTGTTAACATTAACAAGCACAGCGATGGAATTTTAATAATGTATTAGTAAATATTAAACTATCATTATTGAAGGCCGTCCAAGTATTGTTCATTTTTAGTTCATTCATTTCGGCTTAGTCCCTTTATTAATCTGAGGTTGCCACAGCGGAATGAACCGGCTACTTATATAGCATATGTTTTACGCAGCGCATGCCCTTCCAGCTGCAACCCATCACTGGGAAACAGCCATATAGTCTCATTCACACTCATACACCATAGACAATTTAGCTTACCTAATTCACCTATAGCGCATGTGTTTGGACTGTTGAGGAAACCCGAGCACCCGGAGGCAACCCATGCAAACACAGGGAAAACTCCACACAGAAACGCCAACTGACCCAACCAGGACTCGAACCAATGACCTTCTTGCTGTGAAGCGACTGTGCTCCCCACTGCGTCACGGTGCTACCCATTCACTCTTAGTTCATGTTAGTAAATACATTAACTGATGGAGCATTATTATAAAGCATTTTTCTCAATCTTTGACTAGACTGTTGCTTTTTAATTTACAATTTCTAGGTCAGAGAGTCAAGAGACTTCCCTCCATCAATCTCGTCCCTGTTTGTTGACAATGGCTCCTCAATGAGCCCTTCAAGTATCTCTGTTGACAATACAGGAAAGCGTGTTTTCATCAGACGACACATTCTTTCCTCTCACTCTGTTATTTGGCCAAACAGATAATGATGTTCGGCCTCTGGAACAGAAATCATATTAATTCCCAGCCACTTTCTGTTTGGAAAAATCCACACGGCGTCATATCAAGAATAACAAAAATCTGATCGCACCAGGGTGGGAACGTTAGCCTGTCATGTTTCCTGTTTGCCCTGCTTCCTCTCTCACAGAAACGCAAATGGCCAGACAATGGCAGGAAAACCTGCTGGCTTCCTCTAGTCGTGGAAACAGATAGGCCAAATGTGCTTTGCTTTGCTAGGCTAATCTCCAACAGAGAAAAGACGATTCAGTACAGATCGTGCGCTGAAACACGGTGTCACTTTCTAAATTTAAGCCTTCTTAGAGGAGGAACGTCTTCTGCAAACATCTTTATGAGCTGAAAAAAAGATCTTTCATGCTGTATTTTGATTTTGTATCTTCCAG
Seq C2 exon
GCGAGAACTGTGAGACCCTGTTGGCCCCGTGCGGCTCTAAACCCTGTAAGAACGGAGGCGTTTGCAAGGAATCGGAAGACTACGAGAGCTTCTCTTGTGTGTGTCCTGCGGGATGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052094:ENSDART00000130888:15
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]