BtaINT0102889 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007909 | NOTCH2
Description
notch 2 [Source:HGNC Symbol;Acc:HGNC:7882]
Coordinates
chr3:23385404-23389400:+
Coord C1 exon
chr3:23385404-23385663
Coord A exon
chr3:23385664-23389064
Coord C2 exon
chr3:23389065-23389400
Length
3401 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TTCTGTTATCTTTCCTGTAGGTA
3' ss Score
11.55
Exon sequences
Seq C1 exon
GTGTCCAGAGGGCTTCTTGGGAGAATATTGTCAGCATCGAGACCCCTGTGAGAAGAACCGTTGCCAGAATGGTGGGACGTGTGTGGCCCAGGCTATGTTGGGGAAAGCCACGTGCCGCTGTGCCCCGGGCTTCACGGGCGAGGACTGCCAGCACTCGACTACTCACCCCTGCTTTGTGTCTCACCCCTGCCTGAATGGGGGCACCTGCCACGTGCTTAGCCGGGACACCTACGAGTGTACCTGCCAAGTCGGTTTTACAG
Seq A exon
GTAACAAGTGGGACTCAGGCCCACACTTTCCTATTCTCAGCAGGTACTTCTATATGGTGTCTTTTAGATACTATCATCTGGTTCTTTAGGGTCCCCCTCTATCGTACATGTTTATCATTATGGAAAGAACTGGAATGTTCCAGTCAACTATCCTTAACTTCCTTTTGAAAGGGGAGAAAGAGAAAGCAAAAGGGTCAGATACTCCACAGTGGTTGACTGCCTGAAGTGTATGTATCAGGACTGGGGATTATGATTAATTCCCTGTCACTGGAAGAAAAGTTGTTAGTGTTATTGATAACTTATTCCTTAAAAACTTCTCTCTCCAGACATTCAGGGCACTGGCTTTTCTGGTTTTCTAAACCGATTGTTTCTTTTGCTTCTCTATTACCTTGTCCTTGTCCTCATGCATTTAATTTTTGTTCTTTGGAACTCTGTTTTGAGCCTTCTTTTGAGCCATATGACAGCTTTCCCCAGGGAGTCTCACTCTCTCCAGTTTCTTCAGCTGTCATCATCTTCATCCCCTGCTGATGACTCTCACGATCATCCTTTTTGCTTCACACTGACACTGACATTCAGGCTAACTATCTATTGCATATTATCCTTGGAAATTCAACAGGCACCTGAAACTCAACATGTTGATATAGATAGTGACACCAGTGTGCCCTCCAAATACCCCAAGCTAGAAACTCCATCTCATTTGTCTGTAGCCCACCTGGACTCAGGCATGCATTTTAGTCTGAGTTTCTTCCCACCTGTCTACTCCCCTCCGTTTCCTCTTCTGCTCTGTAGTTGACGTTCATGTCCTTTCTCACTTGGACTCCTGCAGTCGTTTCCTAATTGGTTTCCTTACCTTTACTTTCTCCCCGTCTTGTTTACCTGTCACATCGCCACATCTTTAGTTATACATGCAAATCTTCTCACAAACTCACCTGCTTACCATGCCTAGTGACTTTTCGTCATCTGCAGAGTAAACTGCAGACTCTTTTACTTGGCTTTCACAGCCCTTCACAGTCTAGGCCTTGCGTCTTTTTATAGCCTCACTTCCCCACAAGCATCTCGCTTTAGTGACGCCAGCGTCCTCATCATTTCCTGAAAATGTCACACTTCCTGTGCCTCCATGCTATTGCATACTCCTTTGCTGGAATGCCCTTTTCTACATTTGGAAATTGCCTAATGTTATTGTAACCTCTCAGTGACCCTCTCATGATTCCTTTACACAGTTAGTCTCTGTGTTCTATTATTTTATGTGTCATAGTTTGTTGTAATCAATTTTGACATGTTTCTCATCTGACTGTATTATGAGCTCTTCAAAGGTGGGTCTGAGCTTTATTCAAAATGAACCATAAGTGTTTATTAACTTAGTTCTGAAAAGGAGAACTATTCACTGTTTTGTCCTCCAGTATATCAACAATTCTGTAAATCTAATTAGAAAATGAAAAACACACTTAGAAAACTAGACTGATTCATTCAGTTTGGAATGCTTGTTCTATTGGTTTTTGATTAAAAGGTGTTACAGTTATATCTCCATCATGACTGTGACAGCATTGATACTGTGAGTCACTGAAGAGATTTGGTGGTTGAGAGAATAATTTTTCCTGATTGTCAGTTTCAAGTTGTTTTGCTCCACAAGGCAAGGGAGGGCATATCCACTTAAAACATTTTAATCCCGACTAGTGTAAACGGCAGTGATACCTTCTTCATAATGAAAACGTTACTCTGAAATAACCCTTAAATTAAAGTGGATTCCTTGCTATTAAAAAGATCTCTTCTTGGTAGTCCTCAGGGTGCTAATCATCTTTATACATCTGCCACTTTCATCTACCACTTTAGGAACCACCACAGGTCAAGCTCACCCTTTTAGTTTTGGGATAGCTCACTACCCTACCTCATCAGACCTTATGAGCTCACCTCACTCATAGATGAAAAAAACAGAGGCAGAAGGTTAGTGCTTGTACAAAACGTATATGGGAAACCAAGGTCAGCAACCTTCTTGTTTCAGTTGTAGGCAAATACTCTGAAATACACTGTTGGCAGAAGTAACCATTTTTATCTGTTCTCCACTGTAGGTAAGTACTCTCAGTAGAATGAAGGAAAATAGGGAGAAAAATGAAGGTGCCTTCACTCTGTCTTCCCTGAGGTATACATGCTGTACCTAGATTTTTTTTTCCCCTTTTCCCTTTGATTTGATATTCCTGGTAGACAGAGAGTACTTTTGTGTACTCATGTGTCACCTCTCTCTCCCTTTTAGAGAATCTGTCATGGCTCTTACTTGCTTTTCTATGTGGAGGTGGGGTCAAAGATTTGAATGTTTACCTAGACAACCAATTGGAGTATTAACACATTCAGGAGATTCTCAGATCTTCAGTTTTGAAAAAACTCAAACTCATGAAAATAGAAAGCCATGTGAATACTGAATTTACTAGTAGCATAGAAGTAGTTTTTTTCCCTCTCTCTCTCTCTACCTCAGAGAATCTGTTTTGATTCCTTGAGATTGAACACTGTCTTCCTGATTCTTTCTAGCGCTTTCCTACCTGAGAGAGTCCACAAGAATTGCCTTTCTAGATCTTTATTCTTATGACAGCTTCTAGTTTTTTTCATGTTTAAGAAGCCAGAGATTCTTCATCTTCTTCAAACACATCCAGCACTATTTTTGTCAAGACCACAATTAACAAGATGTTTCCCGGAATACGTGTGCATGTGTGTTGTGTTTAAGGGAAGCAGAAGTCATATTGACTTGTTTTTATCATCTAAGAGGTCTGTTTAGTCACAGTGTATTGTGGAAAATATCAGTACATTTTATTTTCATTCAAAAGACATGATTTGGGAGCCTAGTCTAGGGATCGGAGCCCTGCTAGTGTGACAGGTGACATAATAAAAGAAAACAGCAAACTTGGGGTATGTGTTTGCATGTGTACAGGTGTGTATGTGAGGGAAAGAGAGGGGTTGGGGGCTTGGGTACCTGGGTGGAGCATTAAGGATGACTTTATGGCAGTGGTGACTTATGAGTAGAATTATCAAGACAGTGCAGCCCACTGGGTGAACAACAAGGAAGACAGCCTTCCAAACAGAGGAGTATCTTAGGCAGAAACAAAGAGGTGTGAGACACTAGGTGGATCCAGACCCTTCTGTGCTGCAGGGATTCTTGTAGGCTTCCTGCGATTTACCTACAGTCACTCCTGTGCTCCACTGAGTCTTTGTGTCTCAGCTAAGGGCCCTGGAGAGTGCTCCTGTCAGATGAACTTGGGGAGGCTCTGATACGGGCTTCCTGTACAGTTCAGAGAGCTTAGGGATTCTCCACGCAATGGCTTCCTTACGTCACCTGTTGGGTGGGAGATGTGGGGTGGGATGGGCTGACACCCATTTCTGTGGTCAGTTTCTTACTTCTGTTATCTTTCCTGTAG
Seq C2 exon
GTAAACTGTGCCAGTGGACTGATGCCTGCCTGTCCCACCCCTGTGCAAACGGAAGTACCTGTACCACTATGGCCAACCAGTTCTCCTGCACATGCCTTGCAGGCTTCACAGGGCAGAAATGTGAGACTGATGTCAATGAGTGTGACATTCCAGGACAGTGCCAGCACGGTGGCACCTGCCTCAACCTCCCAGGCTCCTATCAGTGCCAATGCCCCCAGGGCTTCACAGGCCAGCACTGCGACAGTCCCTATGTGCCCTGCGCACCCTCCCCCTGTGTCAACGGAGGTACCTGCCGGCAGACCGGTGACTTTACCTTTGAGTGCAGTTGCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007909:ENSBTAT00000010400:3
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:
PF079748=EGF_2=PD(28.6=11.4),PF0000822=EGF=WD(100=37.5),PF0000822=EGF=PU(90.9=34.1)
A:
NA
C2:
PF0000822=EGF=PD(6.1=1.8),PF0000822=EGF=WD(100=27.4),PF0764510=EGF_CA=WD(100=36.3),PF0000822=EGF=PU(81.2=23.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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]