BtaINT0125038 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021020 | RIF1
Description
replication timing regulatory factor 1 [Source:HGNC Symbol;Acc:HGNC:23207]
Coordinates
chr2:44813723-44817676:-
Coord C1 exon
chr2:44817598-44817676
Coord A exon
chr2:44813820-44817597
Coord C2 exon
chr2:44813723-44813819
Length
3778 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
ATGTGGTTTTGTTTTTGTAGACT
3' ss Score
8.24
Exon sequences
Seq C1 exon
TCGTATGACTGGAGAAGATGGAAAAGAAATCATTACAGAAATTGAGAAAAAACTTCCTCAGCTATTTAAAGTTTTAAAG
Seq A exon
GTACGTATCTGTGTTGTAAATAGTAAATAGTTTTTTTTTTACTTTGTGGAGGGAAAAAGATTTTGCTAACTAACTCAAAAACTTTGACTCTAAAATAAAATAACAGGGATATTATAGTACTATTTGAGGACTTGCAGTGTATCAAGTGCTGTCTGATTTTCTTGTTTTCTCTTAATCCTCCCTGTCCAGCTGAGGCTCCTCTTTAATCCCCACTTTGCAGAAGAAATGGGTTTAATGTGTGTAAATTTAGCTGCGGTGACCACTTGAGTCCAAAACTTTCACTCTTAATAGAACAGTGCTTCTAAATGATTCTGTAGTTTTGTCTTTGATCTACTGTGTCGGTAACATTCATTTTTTTATCTTCACTCACCCATATTTCTGCCATTCTTGCTTGGTTAAAAAACAGTTATTATGCTTATCTTGTTTGCTTGTTTATAGGGAGGTTGTGTAGTTTAGCATCAAACTGAGGACATATATTCTTGTTCTCGTTTGAGTATACTGTGGCTTTGTGGCTTTCCTAAACACCTAACTTAATTTCCTTGTTTTTGGAATGAAGAGGTTGAACTAAATCTCCAAAGTCCCTTTGAGTTCTTATTTTTATGACCCTGTTTTTGTGCTTCTACATGGAAGTAGTCTAAAGGTGTTTATTGCACACTTAAGCATTATTTTTGTCTAAATATTGAGGCACTGGGGATACTGCCTTGCCTAACCTTAAATATTCTTATAGCTTTCAGTTCTTTTTGTTCATATAAGGAGGAACTTTACTGTGTAGTAGTTCAAGACTTAGCCATAAGTAAACAATGTTAATGGTATTATCCCATTTTTCTTTGTCGTTTTCACATTCCAGTACTGTTTGATGTGATGATGACATGTATCATCTATTTGGTATTTGAGAGTATGTAGGATCAGGAAATCATTTACATGCAATTTGAATCAAGTTGCATTGTTTGTAAATAGAGTTGGTAACTAAAATGCCTGATGAATAATTATTTGGAAGCCTGTGGGTGGTTAATGATAGGATGATCAAAAGTTGATCACACATATGCTAGCTGCTATTTAGGAGATGCAGTATTAGCTCTCATAGTCTTCAGTGTGTAAGACTTCATCTATTTGTGATTATCTGAACAGATTGCCTTAATATCCCATGTATCTCAGGGTTTAGTATTTTGGATGTTTGGTTGGATTAATTATAAAATGGGTGCTCCAAGGAAGTGTCTGTTCTTATGACTGCTAACATTTACCATTCTTCCTAGTCAAGCATAGCAAATAGTTGAAGATTTCTTGGATATCTGATTTTAGAAGCAAGGGGGAGACTTGAAGATACATTAGTTTGGAATAGGAAATGGTACCAAGAAAGATGCAAGGTTACAAGTAAATGTAGGGTTAGGAACAAATGGAAAGACTTTTGCCTTTGACAGATTTGAGATTTTATAGCTTTTACATGTAGAATATGGGGTTGAGCTTTGAACTCCAAATGGTCATGGATTCAGAATCTTCTATCTGAAGTATTGAGATGACGTTTAAAGCCACTTGCACTTTAGCTACTTAGTGAATGTTACTTCTAACTCCTTCCCTCTCTGTTAGAGGTGTTGTTCCACTCTATAGCTGAATGTCAGCTTTTGCCTTTGAATCTTTGCTTCCTTTATGTAAGTTTTGCTCCTACTTTTACTTCTTTTCTAGTGTCTTCACCATCTTCGTTTGTTGCCCCCCGACTTTTTTTTTTTTTGCTTTCAGGTGTGCAGAGATGCTCTTTTTTTTTTTAAAGGAAAATTCTTAGCTGATCTCCACATAGTTTCCCTCTTTCTTTGTCAAGCTGTATCTCTGGTCTCTAAATCTTCAGTTCAGTTCAGTCACTCAGTTGTGTCTGACTCTGCGACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCGGAGTTCACTGAAACTCACGTCCATCGAGTCGGTGATGCCATCCAGCCATCTCATCATCTGTCATTCCCTTTTCCTCCTGCCCCCAATCCCTCCCAGCATCAGAGTCTTTTTCAATAAGTCAACTCTTCACACGAGGGGCCAAAGTACTGGAGTTTCAGCTTCAGCATCATTCCTTCCAAAGAACACCCAGGGCTGATCTCCTTTAGAATGGACTGGTTGGATCTCCTTGCAGTCCAAGCAACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGCACTCACCCTTCTTCACAGTCCAACTCTCATATCCATACATGACCACTGGAAAAACCATAGCCTTGACTAAATGAACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTGAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTCTTTTAATTTCATGGCTGCAATCACCATCTGCCGTGATTTTGGAGCCCCAAAAAATAGTCTGATACCATTTTCCACTGTTTCCCCATCTATTTGCCATGAAGTGATGGGACCAGATGCCATGATCTTCCTTTTCTGAATGTTGAGCTTTAAGCCAGTTTTTTCACTCTCCTCTCTCACTTTCATCAAGAGGCTTTTTAGTTCCTCTTCACTTTCTGCCATAAGGGTGGTCAGATCAGATCAGATCAGTCGCTCAGTCGTGTCCAACTCTTTGCAACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACCAACTCCCGGAATTCACTCAGACTCATGTCCATCAAGTCAGTGATGCCATCCAGCCATCTCATCATCTGTCGTCCCCTTCTCCTCCTGCCCCCAATCCCTTCCAGCATCAGTCTTTTCCAGTGAGTCAACTCTTCCAATGAGGTGGCCAAAGTCCTGGAGTTTCAGCTTTAGCATCATTCCCTCCAAAGAAATCCTAGGGCTGATCTCCTTTAGAATGGACTGGCTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAACATCAATTCTTCGGCATTCAGCCTTCTTCACAGTCCAACTCTCACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAGACGAACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTGAATATGCTATCTAGGTTGGTCATAACCTTCCTTCCAAGGAGTAAGCGTCTTTTAATTTCGTGGCTGCAGTCACCATAAGGGTGGTATCATCTACATATCTGAAGTTATTGATATTTCTCCCAGCAGTCTTGATTCCAGCTTGTGCTTTTTCCAGCCCAGCGTTTCTCATGATGTACTCTGCATATAAGTTAAATAAGCAGGGTGATGATATACAGCCTTGACGTACTCCTTTTCCTATTTGGAACCAGTCTGTTCCATGTCCAGTTCTGTTACTTCCTGACCTGCATACAAATTTCTCAAGAGGCAGATCAGGTGGTCTGGTATTCCCATCTCTTTCAGAAGTTTCCACAGTTTATTGTGGTCCACACAGTCAAAGGCTTTGGCATAGTCAATAAAGCAGAAATAGATGTTTTTCTGGAACTCTTTTGCTTTTTCCATGATTCAGCGGATGTTGGCAATTTGATCTCTGGTTCCTCTGTCTTTTCTAAAACCAGCTTGAACATCTGGAAGTTCGCGGTTCACGTATTGCTGAAGCCTGGCTTCTTAATCTTACTCCCTTTTAATCTACTCAAGGATTTGCTGATTTTTGCCATTAAAATATAATTTTGTTTTTAATCAACTTTTCCATCTAAAAATTCATTTGCAGTTGTACTTATTTGTAAAAATGTGGTTTTGTTTTTGTAG
Seq C2 exon
ACTCACATTGCCAGTCAAAACTCAGAGCTCAGTAGTGCTGCTCTACAGGCCTTGGGGTTTTGCTTATATAATCCCAAAATTGCCTCTGGATTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021020:ENSBTAT00000027997:2
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:
PF032249=V-ATPase_H_N=FE(21.8=100),PF122313=Rif1_N=FE(7.3=100)
A:
NA
C2:
PF032249=V-ATPase_H_N=FE(26.9=100),PF122313=Rif1_N=FE(8.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]