BtaINT0122374 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020984 | RAPGEF4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:HGNC:16626]
Coordinates
chr2:23699666-23703295:-
Coord C1 exon
chr2:23703207-23703295
Coord A exon
chr2:23699745-23703206
Coord C2 exon
chr2:23699666-23699744
Length
3462 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TTTGTTTTCCTCCCCTGCAGATT
3' ss Score
12.8
Exon sequences
Seq C1 exon
GTATACTGTGATGTCAGGAACACCTGAAAAAATTTTAGAGCATTTTCTAGAAACGATACGCCTTGAGCCAGCTTTAAATGAAGCAACAG
Seq A exon
GTAAACACGTAGAAGAGTTATGGCCATTAAATCTGGGCAGAGCACTGTGAAAAAAAAAACATTCTGAATTCATTCTCAGTAGTGTATCAACAGCAGTTTTAGAAATGGGTCATGTGTGAGATCATTAGAAGAGCATCCTGCCAACCCTACTTTGCCTCCTCATCCTGGCTGTGCTTTGTAGATGGCCCAGTCTCATTCATACATGTTAGGAGTAGCCTTCCAAAGGCATTTCTTAAGTTATCATTTAAATCCCATCTTCCGTAGGTAACTATTTGGTTATAATTTAAATTCTGTCTACTCCCACGAAGGATTAGAAGCTGCCTTCATAAAAGTCACAACCTTGCTCCAACTGGGAGTAAAGTGGTTTTTCCTGAGATTCTTGGACTGCCACAGAGTGGACCTATACACATGTTAGTTTCCTAGGACCGCTGTGACAAAGTAACACCATCCAAGGTGGCTTGAATGCCTCTCAGTCCAAGAGGCTAGAAGTCTAAGATCAGGTGCCGGCAGTGTTGGTTCCTTCCACAGGCTGTGGGGGAGAGCCTGAGATCTCTCGCCTGACGTCTGGTTGAGGGGTGGGTTGATGGCACTCTTTGGCATCCCTGGGCTTGTAGAGGCATCGCTTATCTTCATCTTCACACGGTATTTTCCCTGTGTCACTTCACATCATCTTCTCTCCATGCATTTGTCTCTCTGTCCAAATTTCGTCTTTTTATATCATATTGGATTAGGTTCCATATTCATTATCTTAACTAATTACAAATAAGGTCACATTCTGAGGTCCTGGGGATTTGGACTTCAGCATATCTTATGGGGAGGAAAAAAAAATCAACTAATAATACCACTGTTCAATGAACTAACTAGCCATGTTAACTATTACACAGAGATTTGATGGTGAATGAGATAAATCTCATCAGTGAACTGTTACTATTAGAGCTTGATATCCTTCTCTACTTTGGTCACCATCTTATGTGTGACTTTGGAACAGCCCACATTCAGCTCTTTTTTTAAAAAATAATTTGCTACTGTCCTGTCTCTCAGAATAATAGGCTAATATTTTAAGTGCATTGAGATCCATAGAAGATTTCTCACTAAAAGAAGTTCAAATATTTGTCCAAAAATCTTAGTGGTGGTTCAAAATCTGTTTCTGTCATCTTTGCAGTATATTCAAGGTAAAGTCAGCATTATTGTTGTTATTATTATGCCTTCTAAAAGTATTTTACCACTGGCTACCTTCTTATTTTATCTTCTCATTCTAGTTTCTTATTTTGTGTAAATAGACTATCTGAGGTTTTTAATGTAGTGAATTAATTGGGGAGTAGTAGAAAAGTCAGGATCTGTTTCCAGAGCACTTATTTTCAGTTCAATATTTGTTGAGGATCTTCTTGGGCTGGCGCTAAGCTGGATGCTATGGACAAAGCAGTGTGAATAAGAAACCACCCTCCTGTCCTCAGAAAGCTTATAACCTCCTGGAGGACAAAAAGGAATATGCAAACAACTTGATCAAAAGTCTGAGAGGACCAGGCAGAGTGTCACAGAGGAAATAGCTTTGAAATGTCCCTGAAGGAAGGCTGGTAATCAATGACTACAGACTGGAGATGGAAGCCTTCATGCTAAGGGGCAACATGAGTGCTGACCCAGAAACAGACAAGAAGGACCAGATGCTCTGGCTTTGCTAGACTGTCATATACACCAAACTGTCAGAGAGAAGATGGGGCCTAGGAATTAGGGTCCAGATCTTCAAGTATGTTAGATGTGAAGCTAAGCATGAGGAAGTGGTTGAAGATGTCTGAGCAAAGAGAATGTGGTTAACATCTTTTCTTGAAAAAGGAAATCCTTAAGGGATCAGTTACAAGGGGATAGCTTACTTCCAAGAAGCAAACATAACCTCAAATAAATCATATTTCTAGGACCCGAGGTCAGGAAAAATACGGCAGATTTTTCCCCTCTGATTAACTGTTGCCCAGAATGTGTGATTGCATAATACAAAAAACCAGCATCTTCTCTAAAGTGATTTTGACCAAAAAGGAACATTCTAGTATATTAGAGATGATGGTATCTAAGAAAAGATCTGTAAGACTTTTACTACCCATGAAGAACAAACATATTCTTCCTTTTAAAGTCACTTCTGAAAGAGGAGGGGACTAGATGATTGCTTCTTAAAAACTTGAAGCCCAGAAATCAGTGCATGGTATGGCTGTCACATAGGCTGTGACTCCTGACCATTCCATTTTTGACATTAGAACTAAGTTCTCATCATATTTTAATACTGAACTTCATTTCCTGTAGTTTTTTTCTCATTTTGTTTTTAAGTATAATAGTATTGTGTGGCATGACAGAGATATTAACTAAAGCTAAGGTGGTAATCAGATTGCAATATATACATGTATCAAATCAATACATTGTGTACTTTAAACTTACATAATGTTGTATGACAATTATCAGTTTTTTTAATGAGTGTAATGATTAAACCTTTAGTCACTGATTCCAACTTTGATAATATTTGTTAATTTAAAACACAGACATTGGAAATGCAGTATATATAGTTAAAATTTTTGCATTTCTCACCATTTTCTATTTGAAAACTTATGTGAGTTTCACAGATCTTAGCCATGGTGGTTCATTTTTTAATTGAAAACCCCCGTAGCATCTTGGATTCCGAAACTTTAACACGTGTACTCTTAAGGCTTTTAGATCTGCCTTTACGTGCTTTCCCCTTGAGGTTGCTTGGATAATATTGTCTTTGCAATGAAGAACCAGCATCAGATTCAAAATGAAGCATATCTGGGCGGACTTGCCTTATTTCTTTTGCCATCTCCCTGCTTACCTATCTATAAAACGGCTTCAAATATAAGACATATACCACTTTAATCTCCCAGAGAGCTTTTGTTTTGCTTCAGTTATTGCTCACAGTTTTTCTTTTCTTTTCAACTGCTTTTGTTTCCCTCACCAGTTCTCTGCTCTTATCATGTCCTTTTTCCATAATCCTATCACCCTTTCGTCTTTTATTGCTCCTTCTAGAAATAGAAAGTAGAAAAGAAATAAAGAAAATAGACATTGACAAAAGACAGATGGTGTAAAATAGACAAAGAAATGACCATATCTTAACTCTGCATACATGGTACTGCCCGTGTGTGGTTTCTTAAATTATATATATATATATATATATATATATATATTTTCATTTATTGTGGCTAAGGTGACCAGTACCATTATTACAAGTCTGTCTCTTTTTAAACTTACTGTACTTTTTGTCCACTGTCCTAAGGAAATTGAGTTTTGATCTCAAGCTCTGTTAATCTTTTTATTTTCATATGCCATGCTTCTTCATATAGTAAAACCACAATACCCCAAGCCAACATATAACCATTGGCCAAGAACAAACGAATAGATACTCTTGCTTTCCTCAACATTTCTACAAGAATGTAATTTCTTTTTCTGCTTTGTTTTCCTCCCCTGCAG
Seq C2 exon
ATTCTGTTTTAAATGACTTTGTTATGATGCACTGTGTTTTTATGCCAAATACCCAGCTTTGCCCAGCTCTGGTGGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020984:ENSBTAT00000061074:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(26.2=90.3)
A:
NA
C2:
PF0061815=RasGEF_N=FE(24.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]