BtaINT0122390 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020984 | RAPGEF4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:HGNC:16626]
Coordinates
chr2:23644876-23649173:-
Coord C1 exon
chr2:23649119-23649173
Coord A exon
chr2:23646257-23649118
Coord C2 exon
chr2:23644876-23646256
Length
2862 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACTCTTTGCTCTTTTGATAGATC
3' ss Score
8
Exon sequences
Seq C1 exon
CGAATGATTGCAAATACTGCCAGAACAGTGAGATACTGCAGGAGCCAACCCTTCA
Seq A exon
GTAAGTTAAATGCTGCCACAATATGGATCTTGGTGATTAAGTCCTTTTTAATGGGCTACAGAGACATTCTGGAAGCCGGGACAATATTTGATTGTGTCAGAGACGCTTTGAATCGTGAATCTCATTGGACAAGGGCCTTGTGTTTAAAGATTTTCTAGCTGTAAAACTAGAAAATAACCGTAAGAATATTATTTTATGAATGAACTCAGAAAGTTCATTTGCTCTTTTCAGAATGGATAGAGACAGCTAAGGCACGAATGCCAACAAACCCTGCCTCTAACCAACTCTCTTTATGACTCACTGCTTCATGTTAAGAAACTTACATCAACTCATGATGACTCATTCCGTCGTTTATAAACTGGGAAGGATAATATTTATTGTCTCTTGGAGTGTTGAGAGACCGCCTGAATGTGTATAAGCACACTTGTAAAAGGTCCCTTAGCAGGAATTCATATTATATTTCTAGTATTTCGAGGTGAATTAAGGTGCTTTTCTTAAATCTGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGATCATCGTGCTGGGCCAGTGCTACTGTTTCCTCAGGGCTGGGACTTTGGGTGGAGCTTGGAGCCTTGGCTCCCTCCAGCTGGTCTGGGAGTGAGAAGGTGGCCCCTGTAAAGTTTTGTGCCAGCTTCATTGTATGAGTCACTTGAAGCCATTGGGCTCATTAATTTAACACGATAGTCTGACATAGACATGACTGCGAGGCTACCAGTACCATCCCCTCCAATAAACCTGGTGCCCAGGGACTAAAGTTTCTCATTCTATTCATCAGAGCCATCTTTGCTCTTCTTAGCACAGGGCTGGCCCAAACGAAGGGTTTGCTAACACAGGATACCAGAATTGCTAAACATTTATTTTGTAATGCCTGGGGGTTGGGGGGTCTAGGAAAAATAGTCTTGTCTTAAGGAGCAAGATCCTTAAGAAAAAATTTTGTTCAAGTGATTATGTCTCCTCTTTCTCCCAAAACGAGAACAGTTTGCACATCATCACTTGTTCTTATGTGGATTCTGCCAAAATTAAAGTGTCTCGTATCTCTTCATCTAGAAATGTACTATATGTATAAATACATGGTCATAAAGCAGTTATACAAACAAGTATGAAAATATATAGGTGATGACTACAACAAGGGTTCATAACCTAGAATCCACCGCCCTTCAGGGGGGTCTAGGAAATTCCTGAAATTAAACACAAAATGTCTAAGAGGGTTCAAAGCCTTGAGAAGGTTCTCCATGAGGTCCAAGAACCAAGATAGAATATATTTTGTTCTATAAGCTCCTTTGGAAGTATAATCCTACATTCTCCTACATCTCCTAGAGACATGGTAGGGGGATATATATATATCTCCACTGCATTTGTTGAAGTTATCAGTAACTGCTAGTAAACAACAGCTGCTCGGCTCTGAAGTCAACAATCTATAGATACAGCTATAGGAATAGATTCATAAACATTGTGGGAATATGTACAATGTAATTATAGTATATTGTACATGTAGAGTACACTGCCAGTGACAAGCAAGGAAATTAAGCACTGTGGTATTATTTATATGTGATAATTATACTGATGAGTTTCTTCTTAGAGCAAGTGGGGCCTTTGTATCTTCTCTCTGCTTTTCTGTGTTCAGACCTGCAACACTCCCCTTCACCCCCCCATGCAGATGGCATTCTAATTGTCTTTGGGAGTGGTGTGTGGATCTAAGGAGAACAGATGGACGGCAGAAGGCAACGTGCTATGGGAAAAAGGACGCTGGTCCAGAGTCCAGGCTGGCTCGGCCGCCCCTGGTGTCCCACACTGGCATCCGTGGGTCAGAGGCCACCCAGGGACCATGGCTGAGATGTTGGATCTAAATGGAGCATTTTTCCCCTTTTATTCTGAAATAATGTAATCATTCAAAAATGGAAGAATTCCCAGGGAAGAAATCCAGATTTCTCATTTCTCTAGAAAAATAGGAAGATCCGCCAACTCAGGATACAGGAGCCAGATAGTCACTTCTGAAGGGAACTATCTTTCCCATTCACCAGAGGTCAAATGACCTTCCTCATTCACATCTATTCCCTGTATAGGCATCTGATTGGGCATTTTATTCTTCTTTCAGCCTGGTTTTAGGGAAATTGGTTGACTTCTGATCGCTCTGGTGCTCAAATGCTTTGGGGAGTGGATGAAACTAGAATGGTAACTGGGATTTCAGAACAAATAGCATCAGAGAATTGAAAGTCTAGTAGAAGTCATGACTTCAGCCTGAGATTTTTTTTTTTTTTCCCCTGAGTATGGACAGTCATACAATCTACGGAGTAATGCTGTATGTTGTCTGCAAGTATTAAGGGCAAGAGTCGCACTGGCTTGCTTCAGGTCAGCTCAGGTGTTAAGTGCTTTTGTTAGAAGCTAATGAGAACTATGTCTTTTTGCCATTAGTCCTCCTCTGGGTCAAAGGGAGTAGAGATCAGTGATATACTCTGGGGGATGGCAAGGGGAAACAATTTTAATATATAACCAGGGTTGTCAGGTGACGCTTTCATTTTTATTTGGTGTTTTTAAAACAATATCTGATGCAAAGGAAAATGATCAAAATAGGCAATAGGGAAGAAAAGGGTGGGAGGGAAGAGATGGAACATCCAAGTAGAAACAGTTCAATGAATACAGTGTGTTGAAAGGTCTTGATGGAAACCAGGAATCCATGATAAATGTAATAGGCTGAAGAAAATAAAGCTGTATCTTATATGCATATATTATGCAATGCCAATCCTACTCTTTGCTCTTTTGATAG
Seq C2 exon
ATCCTGATGCAGCTCAAGCTAATAAGAACCACCAGGATGTCCGGAGTTACGTTCGGCAATTAAATGTGATCGACAACCAGAGAACTTTATCACAGATGTCACACAGACTAGAGCCTCGTCGACCATAGACATTTCAAGTGCCCAGAACAACGTTTGCCTCCATTCACAATCTTTAAAAAATGCCATTTATGCTACTACTGACCATACTGTCACTAGAGAATTCTATAAAACAAGCAAAAACCCATCCTGAGACATCTCAGGGCTGCATTCAGCTTACCAGCATCATGACAAGAGAAGAAATTCTTTGACTTGCATACAGCTTGCACACTCTAACTTAGAAATCCCCTGTTCATAGTCACCTTATTTTATTTCCAGTCGTGCCATCTTCTTTGCTGAAACATAAAATAAGAGCAACATGAAGAGTATGGTAGAAATATCATTGTCAAGAGAAGTATCAAGCTCCTGATATTTTTTCTAGGAGTATTTACAGGATGAGATGTGCTACAAATGGTATTTATTTGGCTACATCAGTGGTGGTATAGTTTCATAATTTCTAACTCAACATCTTGATTTGAGCATGGGGTTTTTGGAAGGTGTTGAGGAATCCATGTAACTCCAAACTAGAGGCTGTATTCTTCCATCTTCATAGTCTTACCTCTGAAGGAATTGTACCTGACCACATTACTATAAAACATTCTGGCTATTTATGTAATTTTAGGGAAGACTGGTCTGTAATTTCTGAATGACTTACAGAATAATATTTATGTTTACAATATAACTTTTTAAAATTTACAAATCAGGATTGCATATATAAGAATTCCACTGAGAAACTCTAAGGTTCTTAAAATTGCCAGCGTTAAGATTAAAAAAAAAATGACATTTCAGAAGAGCACAATATGCACAAAACATTTTTCAAAATTATTTTCCTGGGCATTAAAAAACCTTTACTATTGGCTAATTATTGTTACTGATTTAAAAAACCCACATATTTTCTGGACTTAAATGTTATTACAGATACCTTAATTTTCAGCAATTGTTTTGCACTTTCAAATAGATTGTAAATAGTTCATTCAATCAATGGTATACAGTTATTTATTTGCTACATAATAGATATTGTGCCAAATAATTACTTTTTATTTATTTAGTATGTAATTTTGGAGTACATTTTTTCCTGTTTCCACAATTAGGCTACATTATGTGCAGGAATTGTATGTATGTATATCTTCTGTAAATAACAATTAGTATCTTCATTAAATATAATTGTGACAAGAAGTATTGTTCTCAGTTCCTATAATATAGGAGAGATAACCACTTGGCATGGTGGAGTCCTGTATATTTTTTTTAATTGAAATAAAATTCACATACTCTAAAAGTCACCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020984:ENSBTAT00000061074:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
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]