BtaINT0109884 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010378 | PEF1
Description
Bos taurus penta-EF-hand domain containing 1 (PEF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001097992]
Coordinates
chr2:122630771-122635415:+
Coord C1 exon
chr2:122630771-122631080
Coord A exon
chr2:122631081-122635259
Coord C2 exon
chr2:122635260-122635415
Length
4179 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTTGGCACCCCTTCCTGCAGGTG
3' ss Score
8.72
Exon sequences
Seq C1 exon
GGCTGCCCAGGAGCTGGGGGACAAGCACCCGGAGCCCCTCCGGGTAGCTACTACCCCGGACCCCCCCACGGTGGAGGGCAGTATGGGAGCGGGGTACCCCCTGGTGGCGGATATGGAGGAGGTCCTGCCCCTGGAGGGCCTTACGGACCACCAGCTGGTGGAGGACCCTATGGACACCCCCACCCTGGGGGGCTCCCTTCTGGAACTCCAGGAGGACCCTATGGTGGCGCAGCCCCAGGGGGCCCCTATGGTACACCACCTCCAAATTCCTTCGGTGCCGGACCTTATGGACAGGGACCACCTCCTCCAG
Seq A exon
GTAAGTAGGGGTCTTGGACTCCAGCTGCCTTGAGCCTTGTTCCGAGTTATCCAGGGCCCTGTATGCCCTTCTTGTGAATGCACAGGCAGCCTGCTCTCTGGCTTCTAAGCATCTTGTCTCTAGCTTTGCTTGCATTAGCAGAATGAGAAGTCTGTTAATTAGCTTTGCTGTGGTGACAACAATTCTGAAATCTCTGGCTTACAGCAACAAACGTTTATTTCTGTTCCTCGCTCACACTTATTTACTCTTGCTTACACGTCGACAGCTGCAGGCTTGGCTGCTGAGGTTCTGCTCCACGTGTCTTTTCTTTCCAGGATCTCGGCTGGAGGCGCAGCCCCCGTTTGGGGTATGCTGTTTCTGTGACAGGCGAAAAGAGCAGGAGAGCTAGGAGGAATGCACAGTGCCTCCTAAAGCTTCTGCTCTGAAGGACGTTATATCTCTTCCACTCAGGTTTATCACATCCCCTGGTTCAAGCCTGACATCAGTAGGATGGGAGTGGATCTTTCTCTCATTAGAGGGGGCTCTGCAGCCCCTGGGCAGTGGAGAGGATGTACCATGCTCTTGCCAGAAGTGGGGGAAGGAGTAGATTAGCCAGTCATTGGAGACAGCAGTACCATCTGCTGTGGGAAGGAACCCCTTTTCTGTGTAAGGGAGGCTGACTGCTTATATGCAGAAAGGCACGGTAGCCTAATTGCTGAAAGCTTGGGCTTTTGAGATAAGATCACTTACTGATCTGACCACATTACTTCATCTCTTTAAGCCTCAGTAGCCACATCTGTAAAATGGGTAAGTATCACTGCTTCACAGGATCGTTAATAAGGATTAAGTGAGAAGTTGCAGGTAAACACTGGGCACAGTGTCTGGCACATGGAGGGGCTTACTAAACAGTGTTCTGTTAGAGGGCTTGTTCTGGAACATTCTCAGCAAAGAGGTATTGAGCATTTACTGTGACAGCAGACGTGACAAGGGCTGTCCCACTGCAGGATGCCAAGACAGGCGGGGGGTGATGAGATGAGATGGGGAAGGATAAAGAGCAGAGGCAGTAAAGGTGAGCTGCTGGACGAATGGGGCCTGGGGAGGGGGCTTGGCAACTCAGTGGATGTGGAGAAGCTTAGGTGGGGGCTTCAGGCTCAGTTGAAGACTCCTGAGTGGTCTCAGACCGGCTGTCAGGAAAGGTGAGTGCCCAGACCCCTGCGCCCTCCCAAACTCATCCAGTGAGCCTGTTCACAGCATCCTTGTTCCGAGGAGCCCGCTCTGGCAGTGAGGCAGCCTGGAGCCACTCTGCTGCACCTGAAGGGCCTCCGGGGAGCGGTGCTGCAGGGAAACTGCAGCGTCTTAGTATACAGAGCGGCAGGTGGCCGAGGGAGAGGCTCGGACCTTGGGGGCTCTAAACACTGGGAGCCAGTGGCATTTATCTTGTCAGAGCTGGAGCTGCTGGCTATTTGCTTTCAGCTCAGCAGCTTCCTGGTGGATTTCCTCCTAAAATTTTGTTTCTGAGCCTGCATGAGGTCTCAGCAGGGGAATGGAACCCCTGGCTGTGAAGCTCACTCCTCCAGGGCCTGAGGCCAGAGATACTTTCTGGGGCTGCAGAGGAGAGGAGAAATGTGCTTCAGACTATTAACTGCTCACCCTCTGCAGCTGCCTGTCTCCCAACCACCATCCTGTCCCCCGCAGTGCCGCCTGTGAACCCCTGGAGCAGTGCTTCTTGAAGCATGATCCTTATATCACATGCACTGGAGGGCCTGCCTTAGCCCTGCTGAATCCAGAGTCTAAAAGTTGAGCACCGTGCTCTGCCAGAGAGGTTTGGCCCTTAACGTTGCCCCCACTGCCCACAGGGGAGATCCTAGGGGCACTCGACTCCCAAAGGGCCTCTCCAGCTCCTCACCTGCCATTACCCCTCCCTCCCACCAACCCAAGACCCCGTGGAGTGCTCTGAACACACTCTGTGCCTTTGCCACATGGCTTTTCTTTTCCCCATTGCAACTCTTTGGTCACCCTTTCAGACCCAATTTTAAAAGCCCTTCCTCTGTGAAAATTGGACTGCACACATTCCAGGCCCATTGCAAAAATTTTCTTTTGCCATTATGTCACTTAGTCATCAGAGAAACCCTGGGAAGTGGGTCCAATTTAGAAATGGAGGAATTAGTACTGAGAGAATGGAATGGTTTCTCTAAAGTCACACAAGCTAGTAAGGATCAGAGCTCTTTGCTTCCAGAGGCTGAGCTCTTCTCTGCTGATTGCAGAGACCGCGTGTTCCAGAGACTCTTCGCCCCTGCCTATGGCCTCCTCAGCGTCTGGCACAGCAGCTGTTTTTTTAGGAAAGAGGGTGGGGCCTGTCGGGATTTCCCACCCGAGGAGGGCAGCCTAGTCCCTCAGTCAGGCCAATCTTTCCTTCCAGCCTCGCCTTGGGGCCTGGGTGGGGGTTTCTGCGCAGTCTCTGATACCGCCTTGTGCCAACGAGCCCTTTTTGGGGCCAGTCAACTCAGCAGGGTTACCAGTACTCTGGCTTTTTCCCAAGACAATCTTCTGTGCTTCTCCGCTTTCATCTGCCACCCTCTCCCCTCACCCCCAGCCCACCCTGCAGTCTCCTTTCCAAATGAATGATCCTTTCTTGCATCTTCTGACATACGCACAAAGCTCGCAGACACCCAAAGCCGTTTGAACGCCGACAGCAACACTAATAATCAGCAGTTACACAGGACTTAGACGGTGCCAGGTGCTGATCCAAGGGCTTTCGTGGATTCATTATATCGTCACAGTAACCTTATGAAGTAGATGCTGTTGTGTCCTCATTTCACAGATAAGAAACCGAAACACAGAGAACGTTAAGAGCTTAGCTGAGGCCGCACCCGGGAGAGCTGAGGCTTGACCAGGAGCCGCCTCTGGCAGGGGCTGAGCACCTCCCTCTTCTGTGTCCTGCCGAGCCCCTGGGGATTCAGAGATGAGTTAGGCTTGGATCCTGCCCACAAGCTGCTCCAAGTATAACCTGGAAGAAGTTGGGAAAAACATGTACACAGAAGAGTGATCAGGGCTATAGGGTGAAGGGGTACAAAGGAGAGAGGAAGAAGGTCCGTCCAGGAATGGAAGAAGAAGAAAGGCTTTATGGAAGGAGCAGCATCTTCTTTTGAGTTTTGAAGTGTGGATGGGAAACGGATGCAAAGAGATGAGGGAGAAGGGGACGCGAAGCAGAGAGAACCCAGCGTGTCAGGGCTCCGCGGAGGGGCTGGGCAGCTCTGGGGAGGAGCAAGGGCCTTACTGCAGCTAGGCTGGCACAACAGGGTGGGGAGACAGACTGACAAGTAGACGGGGTGGACCACGTGGTGGGGAGACTGGAATGCTGTTTTAGGGGCGCTGGGCTTCATTGTAGGCAGTGAGGTGCCTCGGAGGAGTTTTGAGTTGAGGAGGGGGAAACTGGTGAGAACAGAGTGGGATTTTACAAAGGTTGCTCAGCTACAAGTGCTGGGTGGTGGAGAGTTGCCGTATGGGGGATTCGGTTTCACAGTCAGGTGAGAGGGGTCTGAATCAGGGCAGGTGCAGTAGGAACAGGGAAGAGTTGATAGCTGTGTGTGGAACTGCCAGCTTTGGGCTGCTCTTCGGATGTGTGGGATGAGGTGTCGGAGATGTCCTCGGGGAGGTTCACAGATGAGGACCTCTGGAGGCCATGGGGAGGGAGGAACAGCGGCCACCCACACTCTGGTAGGTCCAGATAGGATACACCTGCCCTCATGGTGCCAGGGCAGTCAGAGATGGACCAGACCTGGTTCCCACCACAGAGAACTCCCTGCTGCCTGATGCTCAAGATGCTTGTCTCTGGGCCATGCATGTTAGGTGCTCAGCAAACAGTTTTGGGTCCACCTTCTCAGAAGATTCTTAATCTGACAGATGAGTCCCTGTTTCTTAGAAACTTAAAATCAAATAGAAGAGTGGCTGGAGCACTATAGGAAAAGCCAGAAGGATTTGTGGAGTAGAATTCAATGCATTTACACAGAAGGTCCTCTTCCATTAGAGGAAGGATGTTGTCTTGATGGAAGACAGGGAGGGGGCAGACAGACCTGTAAGGCTTTCAGAGAAGGGAAAACCTGTAGCCAGGGAGGTGCCGAGGCTGGCCCTTCCCAGCATTTCTGCGGATTGGTCTTGAGTCCTGCATCTGACTGTCCTGGTTGGCACCCCTTCCTGCAG
Seq C2 exon
GTGGCGTCCCTCCCAATGTGGATCCCGAGGCTTACTCCTGGTTCCAGTCAGTGGACTCTGATCACAGTGGCTACATCTCCATCAAGGAGCTGAAGCAGGCCCTGGTCAACTCCAACTGGTCCTCGTTCAATGACGAGACGTGCCTTATGATGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010378:ENSBTAT00000013699:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.264
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134991=EF-hand_7=PU(70.1=88.7)
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:
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]