BtaINT0150017 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011023 | TMEM52B
Description
transmembrane protein 52B [Source:HGNC Symbol;Acc:HGNC:26438]
Coordinates
chr5:100223260-100227420:-
Coord C1 exon
chr5:100227254-100227420
Coord A exon
chr5:100225486-100227253
Coord C2 exon
chr5:100223260-100225485
Length
1768 bp
Sequences
Splice sites
5' ss Seq
CTTGTGAGT
5' ss Score
7.15
3' ss Seq
TCCGGTTCTTTCCTGCCTAGCCC
3' ss Score
7.18
Exon sequences
Seq C1 exon
GCTGCTGGTGGTCATCGGGGCACTGCTTCTCCTGTGCGGCCTGACTTCTGTGTGCTTCCGCTGCTGTCTGGATCGCCAGCAAAATGGGGGAGAGGAGGGCCAGCCACCCTATGAAGTGACGGTCATCGCTTTTGACCATGACAGCACTCTCCAGAGTACGGTCACTT
Seq A exon
GTGAGTATATGGACATGTAACACGGGAAGTGAAGCCGGGTTTAAAAGAACACCTGGTGCGAAGGTTTAAAAACATTGATCAAACAGTATTAGATTTATTTATTTATTCACGTATTATTTTTGCTTGCACTGGGTCTTCGTTGCTGCATTCGGGCTTTCTCTAGTTGCCCCGGGGAAGGGGCTACTTTCTGGTTTCGGTATGAGGGCTTCACATGGTGATGGCTTCTCTGGTTGGGGAGCATGGGCTCTAGAGCAAGCAGGGTTCGGCAGTTGTGATACAGGGGTTTAGTTGCTCCGTGACATGTGAAATCTTCGGGGACCAGGAATGGAACCCTTGTTCCCTGCATTGTCAGGTTGATTCTTATCCATTGTACCAAGAAATAAAAAGTCATTCAGTTGTATCTGACTCTGCGATCCCATGGACTATACAGTCCATGGAATTCTCCAGGCAAGAATACTGGCGGGGGTAGCCTTTCCCTTCTCCAGGGAATCTTCCCAACCCAGGGATCAAACCCAGGTCTTCCGCATTGCAGGTGGATTCTTTACCAGCTGAGCTACCAGGGAAGCCCACTGTACCAAGAGGGAATAGTGTTAAAGATTCTAAATCTTGGGGCAGCTTTAATTTCCAGATGCCTGATGGTGTGGTGACCTTGCCCCTCACGGATGCTGTACTTATGGTCTGATGATGGAATGAAGGAAGAAATGAAATGTTAGAGACGATATTGGAAACGTCTTATAGGAAAAATTTACAAGTTGATAAACAATTACTTTGATAAAACTATTTTAAGCACTGCACATATCCCTTTTTTGAAAACATCTTAGATTTTGTGAAAGCCAAACTTATATTTTCTCTTTACTATATTTTTTATCTTTAGAAAAATTAGTCATGGGATACTTTAAATTCTTTATTCACCAGGTCTTACTCTGTTAAATATTAGGCCCAACACCTGATAGTTATAAGACACTTTCCTTTATCTCCCTCTGTTCTCTTCTTTGGATTATATTCTTTCCTAAAATTGGAGAGTGACCTACTGGGCAGAACAGCAGGTGGAAATATGCTGTAATATTTATTTTGAAAAAAGAGAGAGCTATAGCACATTGTTCACCTTTTCCTGCTTCTTTTCTCACTGTCAGTCTACGGGGAAACATAAATAGGCAGAAACAATTACTTCTAAGGGATCTGCAACTTCAGTGGGTTGGCATAAAGGGTTTTAAATTAGTAAAGGGGAAAGAAAGGGGTTATGACATGTGGGGACACATTTTAGATTATTTGAGAAAGCAAAGAGGGAAGTTGGTTTCTACACAAGCTTCACAGGACTTTTATAACATCTGTTGCCAAGAGTGACAATGAGTTTTGACACTTGTTGAAAATGAAGGGGGATTTGGCTTCCCTGGGGACTCAGTGGTAAAGAATCTGCCTGCCAATGCAGGAGGCACGGGTTCAGTTCCTGGTCCAGGAGGATCCTACATGCTGTGGGACAACTAATCCTATCTTCCTCAGCTACTGAGCCTGTGCTCTGAAATAAGGGAATCCACTGCAATGAGAAACCCACGCACCAACTAGAGAGTAGCCCCTCTTCACCACAACTGGAGAAAACCTGTGGGCAACAGCGAAGACCCAGTGCAGCCAATGAGTAAATAAAGAAAAGGGACAGAGGCTAGACACCCTTTTCATAAAATAATATAAATCAAGGGGAACTGCATGTGCTGTAAGTCTCTGGTTTCTGAAGATGCCACATGTACTTGAACTCCGGTTCTTTCCTGCCTAG
Seq C2 exon
CCCTGCAGTCAGTGTTCGGCCCTGCGGCTCGAAGGATCCTGGCTGTGGCTCACTCCCCCAGCTCCCTGGGCCAGCTGCCCTCCTCTCTGGACACCCTCCCAGGGTATGAGGAAGCACTTCGCATGACTCGCTTCACTGTTTCAAGGTGCGGGCAGAAAGCACCTGATCTACCATCAGTGCCAGAAGAAAAGCAGCTGCCCCCGATGGAGAAAGAGTCTCCCGGAGTACAACACTCTTCTGATTGATGGGGACCTTTTTTGTTTTTTTTAACCGTTGTATTTTATTTAGCTGTAACAAATCAAATTGCTAAAACTTTTGTTTATGTTAAATTTGAGATAAGCCTATAGACCCAGCAAGAGAAATGTAATTATAAACAGACATGGCCACTAGTTGCTAGTAGTAACAGTTACTATATTACACATATTTTCTCTTATAATATGTCATTGCAACACAACTTAAAATTAGCACACTAATTTGCATTTATAAGTAATTCACATTACATTTATAAGTGATTTATAGGGAAAACATTACATTTATAAGTGATTTAAATTCTCTGTAATTTAATGTCTCATCTGCTGAAGTATAGTAGTCATAGTACCTTAGAAGTTCCTTTTTAATTTATTTTTAATTGGAGGATAATTGCTTTATAATGTGTTGGCTTCTGCTGTAAAACTACATGAATCAGCCATATATATATACACACACACACATATATATATATATATCCCCTACTTCTTGAACATCCCTCCCACCCCCCAAAATCTGGTTTTATTAATGGAGTGGAGGTGTCCTCAGGGTTGGTAAATATGCCCAGACAAATGGAAAAATTTTTCCTAACTTTCAGAAGGGTTAGGATGGCATCTAAACATCATTCTGTGGGAAAGATAGATTCTAACTCTTCATTTCCAGGTGCATCTATTTTCTGCTATGGGATGCTCTTGTTGAGAACTCTTCTTTATCCAGGGGTAAAAAATTTGCAATTAACCTGTAGTGATGCTGATTACTACTAAACTGGAAAGCACCAGAGGCAGCTTGGATTCCTTCACCTATCAAGTTCTTTTCCCTAGAGGACGCTGCAAGTTTCCCTAGCAGCAAACAGGTTGTGTACACTTGTGGAGAAAGACACTCGTATAGGCACAGCCAGAGCTGTTAATGCACTGAATTCACACAGCCTTCCTCTCATGAGAACATTCACTTTTATGCTAAATCACAGTGATAATTTGGGACATCATGTAGTACCTCACTGGACATCCAAAATCCAGGGGTGGGATTGCGGGCATGGGCTAAGAGGGCACAGTAAAGTACTGAAGTGCAAATATTGAGGTCTTTCATTCTTCTACCCACTAACAGAACGGGAAACTGAATAGAATGCAGTAACAGTTCCATTCATTTTTTAGTTCCTCTGCCCTGCAAACACATGCACGCACATGGAGGCATGCACACATATGCACACGTATGCTTTTGTAACTCTAAAAGATAGCATTGTTTTGCCTCTTTCCTCCTTCCTGCTTTGACTGCTTTCAAGTCCTGTCTCTATAGTGACAACACTTGTTTCTTGTGGTGACCTTCACTGCCACCTGGTGGAGCGATGGTAGAAATGCATTCTCCTATTGGCACCTAAAGCTTCCCTGGTGGCTCAGTGGTCAAGAATCCACCTGCCAATGCAAGAGACGTGGGTTCGATCCCTGGGTCAGGAAGATCCCCTGCAGGAGGAAATGGCAACCCACTCCAGTGTTCTAGCCTGGCAAATGCGTACTTCTCCAATCTTTGGAGCACTAACTGCTTGGAGTCCTTCCCAGGGCACCATCCTGCTGTTGCATTGCTAACCTGTCCACATAACACACTACCTCCAAAATTTCCTGTTATTGGAAAATTTAGGAAATGAAGTACATTTGGGGAAAAACTACTTGCCAGTGACCTTAGGAAAGTTACCGAACTCTTTCAAGAACAGTCTCTCATTTGTAAAAGAAAGGATAATAACACCACTGATGATAGTTGTGAAAATCAAATAAACTGTCTAGAAATGACAAGATTTGTAAATTATTATACACATGCATTTGTTACTATTACTTTTGACAGTTTATTTTCATTTGCCTCCTATGATGTTGCTGAGAATTATATTCTGATTTGTCCTTTTGCCAGTCAGCTTGCTGAATTATTGCTAAGTCACCCCTCACGTAGCTTTATTTCATCAATAAATATTTGTTGGTTGAGGTAAACAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011023:ENSBTAT00000014644:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.358
Domain overlap (PFAM):
C1:
PF116693=WBP-1=FE(54.4=100),PF149791=TMEM52=FE(39.4=100)
A:
NA
C2:
PF116693=WBP-1=PD(21.4=26.8),PF149791=TMEM52=PD(45.1=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGACTTCTGTGTGCTTCCG
R:
AGACTCTTTCTCCATCGGGGG
Band lengths:
346-2114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]