BtaINT0138445 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014132 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr3:120798639-120803499:+
Coord C1 exon
chr3:120798639-120798729
Coord A exon
chr3:120798730-120803418
Coord C2 exon
chr3:120803419-120803499
Length
4689 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
AGAGCTCTCTGGTGACACAGGTA
3' ss Score
3.03
Exon sequences
Seq C1 exon
CAGCCTGCACGAAGGTGCCCCAGCCCTGCACGCGGCTGTTCTCAGAGACCAAGTCCATGCCGGTCTGGGAAGGAGGCGTCTGTCGCCATGT
Seq A exon
GTAAGTCCCTGCTCCCCGCCTTCGCCGCGCCTGCAGCGTGCTCCTGGCCCTGAAGTGCTTCTGCCCAGTCCTCACAGCACCCTGAGCTCTAACACGTTTGACACTGACCCCTTGCTGGTCATACCATTTGTGAACACTTCCCCCTATTCCACAGGCTGTCCTTTGGTTTTGTCGATCGTTCCTTTGCTGTGCAAAAGCTTTTAAGTTTGACTAGGGCCCATTTGTTTGTGTTTGCTTTTCTTTCGTCTTGGGAGACTGATCTAAGAAAATATTGTTTCGATTTATGTCAAAGGTTCTTTTGCCTGTGTTCTAAGGGTTTCAGCATCAGGCCCTACATTCAAGGCTTCCAGCCTATTGGTTTTTGTACGTGGTGTGAGGGGCTGTGATTTACATGGAGCCGTCCAGCTTCACCAACGCTGCTGGCTGAAGAGCCCATCTGCCACTGTGTGCCCCTGCTCCTTTCTCACATTAACGGGCCACAGGTGGTGGTGTGTTCCGTCACCAGGTCACGCCGACTCTGACCCCGTGGACTGCGGCACGCCTGGCTTCCCTGTCCTCCACCATCCCCCCCAGTCTGCTCACACTCACATCCGTTGAGTCGGTGATGCCATCCAACCATCTCATCCCGTCTTCCCCTTCTCCTCCCACCTTCAATCTTTCCCAGCATCAGGGTCTTTTCCAATGAGTCAGCTCTTCACATCAAGTGACCAAAGTATCACAGTTTCAGCTTCAGCATCAGTCTTTACAATGAATATTCAGGACTGATCTCCTTCAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTCTGCACTCAGCTTTATGGTCCAATTCTCACATCCATACATGACCACTGGAAAAACCATAGCCTTGACTAGACGGGCCTTTGCTGTCAATGATGTCTCTGCTTTTTAATACTCTGTGTCTAGGTTTGTGATAGCTTTTCTTCCAAGGAGCGAGCGTTTTTGAAATTTCATGGCTGCGATCACCATCCACAATGATTTTGGAGCCCAAGAAAATAAAGTATCTCACCGTTTCCACTTTTCCCCCATCTATTTGCCGTGAAGTGATGGAACCAGATGCTTGAATGTTGAATTTTAAAGCCAGCTTTTTCACTCTCCTCTTCTGCCCTCATCAAGAGGTTCTTTAGTTCCTCTTCTGTTCCTGCCATTAGGGTGGTGTCATCTGCGTATCTGAGGTTGTTGATATTTCTCCTGGCAATCTTGACTCCAGCCTGTGAGTCATCCAGCTCGGCATTTTGCATGATGTACTTTGCACAGAAGTTAAACAAACCGGGTGACCACATACAGCCTTGACGCACTCCTTTCCCAATCTGGAAACAGTCCATTGTTCCATGTCCGGTTCTAACTGTTGCTTCTTAACCTGCATACAGGTTTCTTGGGAGGTAGGTAAGGTGGATCTGGTATTCCCATCTCGAAGAATTTTCCAGTTTGTTGTGATCCACAGTCAAAGGCTTTAGCATAATCAATGAAGCAGATGTTTTTCTGGAACTCTCTTGCTTTTTCTATGATCCAGCAGATGCCGGCAATTTGATCTCTGGTTCCTCTGCCTTTTCTAAATCCAGCTTGTACATCTGGAAGTTCTTGGTTCACATACTGCTGAAGCCTAGCTTGAAGGATTTGAGCATTACCTTGCTAGCACGTGAAATGAGCACAGCTGTACAGCAGTTTGAGCATTCTTTGGCACTGCCTTTGAGATTAACATGAAAACTAACCTTTTCCAGTCCTGTGGCCATTGCTGAATTTTCCAAAATTTGCTGGCATATTGATTACAGCACTTTCACACCATCTTTTAGGATTTTAAACAGCTCAGCTGAACTCTGTCACCTCCACTAGCTTTGTTCATAGTGATGCTTCCTAAGGCTCACCTGACTTTGCATTCCAGGATGTCTGGCTCTAGATGAGTGATCACACCATCATGGTTATCTGGGTCATGAAAATCTTTTTTGTACAGTTCTTCTGTGCCTTCTTGTCACCTTTTCTTAATCTCTTCTGCTTCTGTTAGGTCCATACCGTTTCTGTCCTTTATTGTACCCATCTTTGCATGAAATATCTCCTTAGTATGCCTAATTTTCTTGAAGAGATAGATCGGTAGTCATTCCCATTCTACTGTTTTCCTCTATTGCTTTGCATTGTTCACTTAAGGCGTTCTCTCTCCTTGCTGTTCTCTGGAACTCTGCATTCGGTTGGGTGTATCTTCCCCTTTCTTCTTTGCTTTGTACTTCTCTTATCAGCTATTTGTAAGGCCTCCTCAGACAACCATTTTGCCTTCTTGCATTTCTTTTTCTTGGGGATGGTTTTGGTCGCAGCCTGCTGTACAGTGTTACAAACCTCTGTCCATAGTTCTTCCGGCACTCTATCTGTCAGATCTAACCCCTTGAATCTATTTGCATTTCCACTGTATGATAAGGGATTTGATTTAGGTCATACCTGAATGGCCTAGTTGTTCTTCCTAAGTCTGAAGTTCTCAATAAGTATGTGTATGGGCTTATTTCTAGGTTCTCTATTCTGTTCAACTGATCTGTATGTCTGTTTTTGTGCCAATACTACACTGATTTGATCACTGTAGCTTTATAGTATAGGCTGAAGCTTGGGTTATACTTCCAGCTTTGTCCATTATTCTTGGGATTGCTTGGCAATTCGTGTTTTGTGGTTCTATATAAAGTTCAGGATTATTTGTTCTAGTACTATGGAGAATTTCATAGATGTTTTGAAAAAGATTGCATTAAATTTGTAGATTGTTTGGGGGAGTATGGCCATTTTAACAATATTAATTCTGCCAATCCAAGAGCACAGGATATGTGTCCAATTCTCTGAGTCATCTTTAGCTTCCTCTATCAATGTTTTAGTTTTCAGCATATAGGTATTTCATCTCCCTGGCTAAGTTTATTCCTGGGTTGTTGTTGTTTTATGTGATTTTAAGCAGGTTTTTTTTAACTTTCTGATATTATTAGTGTAAAGAAACACAACAGACTTCTGTATATTAATCTTATATTCTGCTGCCTTGCTGAGTTCATTTAATAGCTTTTGTGTGGAGACTTTACAGTTCCCTACAGAGTGTGATCTCATCTACAGACAGGGCCAATTCCCCGTCTTCCAATCTGAACACCTGTTTCATTTTCCCGTCTGAGTGCTGTGTGCAGCATTTCCAACACTGCACTGAATAGAAGCGCTCAGAGCAGACCTTCTTTGGCTCCTTTATTGTTTGATTTCTGCAAGGCAAGTCAGACAGACCCTTTGAGGCCTGTTTTAGGGTGGCTTTAGCACAGCTTTATTCCGGGGTTCATCCTGCCTCACTTTTAAAGCAAGGCCTTTCTGGGGTTTCTGCTGCCCTGAAACAGCCTACCGTTAATCCGGACCTCCCCACTCTGGGTCTGGGACTGTCCAGCTCCTCCGTGTTCCCCCCTGCTCACCTCTGTCCGCCCTGTGCACGCACAGCTTCATCTCCACGGGGAGCCTTCTCCAGAAGTCTGGAGCTCTTCCTCTGCACAGCTGCCTCCTTGCTGGCCTCTGACTCACAAATTCCTGCCACCTCTGCTTCCCCAATTCCAATCTCTTGTTTCACCAACTCAGTGCAACCACTGCGTGGACCCCCCTGAACCCACCACAGCCCACACAGTGCCTACTGGCGGAGTGCCGCCCAGCCACCGCGCTCGTGTGCCCCCTGCTCCTCAGGCCGGTCCTGCAGTGTTCTCTAACGTCCGAGAAGACTCACTTCCTGTATCTCGCCCAGTTCTCCAGTTGTTCACGTGCGGTTAATTCCAGGTCCTGCCACGGCCAGATGACTGGAAATGGAAGTCTTAGCTAAGGCTTCAGATCCTAAGGCTCTCCTAGACTGAGCTCATGAGCTGGGGTTTTACCCACTGAACTCCCTGGATCTCTTTCAAACAGCTCCAGCATTCCAAAAGCGTTAATGTCTCATTTGTTGTTCTCTATAAACTTGTGACAGAGGCAGGATAAAGAATTCCCGTTTTGTACGAAACTGAGGCTTAAGTTCCAGAGGCATCTCAGAGTACACTAGTTAGTAAGGCAGGGCTGGGGTAAAGACTCCTGTCCTACATGTCGCCCACATCTAACGCCTGCATCTCCAAGGTTTCTCCATCAACTTCCCAGAAGAGGACAGTCTTACTGTTTCAAAGCTGTAGGGCCAAGTAGCCTGTCTCACAGAGAAGGAAATGGCAACCCACTCCAGTATTCCTGCCTGGGAAATCCCATGGACAGATGAGCCTGGAGGGTTACAGCCCATGGGGTCGCAAAGACTAGGACACAGCTTAGCAACCAAACAGCAACAACAACGTCTATCTCAAGCAAGACATGCCTTTGAAACAGCAGGCTTTATCTCTTACATGACTTTGTCAACACTCATCAGGATGTATACTTCAAATGGGCATATCTTATGAAAATTATACCTGGATAAAGTTGTTTTAAAATTACATAATTTTTATGTTGACATTTTAACACATCTATAGGAGAAAGTTTTATTAGGAATAAACAGCCTTCCTTAGCAACAGCCTTCCTCAGAAGCCTGCACAGTTACTGTGGGTTGGTGTGGCCTAGGTGAAGGAGCTGGGCAACACTCCGCTCAGCCCCTGGCTTCACAGAGCTCTCTGGTGACACAG
Seq C2 exon
GTATAAGAGAGTCTACAAAGTGCACCCGGACACCTGCTTCAAGGAGAGCTGTGAGAGCACCCGCACCAGAGCTCCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014132:ENSBTAT00000064553:29
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=0.152
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]