BtaINT0122351 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006828 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr5:32697815-32703690:+
Coord C1 exon
chr5:32697815-32698027
Coord A exon
chr5:32698028-32703636
Coord C2 exon
chr5:32703637-32703690
Length
5609 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
AGACTCCCCACTGCCCTCAGACG
3' ss Score
5.22
Exon sequences
Seq C1 exon
GTGGGCTGGCCAGGTGAGGGCCGCTGGCAGGTGGGCCTGGCTGTAGAGGGCGACTCGATTCTGGGAGCACCGCCGTTGGGAGGCCTCCCGGACGTGGTGCCGGAGGGGACGCTGCTCAACATGGTGCTCAGGAGGATGTATCGGTCCCGAAGCTGCTCCTACCAGCTGCTGCTCGAACACCAGCGCCCCAGCTGCATCCAGGGGCTGCGCTGG
Seq A exon
GTGAGTCCCATCCCCTTCCCTGGCCAGGGCCAGGCCCCCCTGGGCTGGAGAGGGCCCCCGACTGGGAGGGCGAGCATGCTGCTACCAGTCCAGCTTGCTCGGCGGGCATGGGGGATACACCTGGGGTGGGCAGCAGGTCAGGCAGCCTGGCTGCAGTGTGGGTGTCTCACACAACTGCGTTGGGTATGCGGGTATGCTGGGTATGCGTGGTGCCCAAGTCCCCCTATTCAGGAATGTGGCGAAGGGGAAAAGAACTTGTCACTTCCCTGTGGCTTGAGTTAGGTGCTCGTGTGTTCTTCAGGTGGTGTGGGAGACATGTATGAAATACAGGGGTCGGGTCAAGTGCTGGGGAGGTAAGCTTGGTACTATTCTTTAAACATCACCGTGGCAGCATTCTCCTTAGTGAGGACTGAACTGCATGGAGTCTGTGTCTTGATCTGGGGTGAAGTGGTTGGCATTTGGCTTGGAGGGGCTCAGGGGAGAATTATGAGAAGTTTGGAGACTGTGAGATGAACGGAGCTCCCTTTGCCAGTGAAGAACATCTCTGGAGCTGCAAGAATGAAGGAAAGAGAAGTGTGTGTGGTGGGGGGCAGGGTGCGGGGGGGTGGGTAGATGGTGGATGGTAGGCAGGATATGGTTGCAGGATCCAAAACAGCAGAGAAGCTCTCCCCAACCACCCAGACTTAATAGATTTTCTTCACCTGAGCTCTGGTGTGTGTCTGTGACATGTGTGCAGGTGGGTGGGGGGGCCCATCGGGGCAAAGGGGTGGAGTTGGATCAGGTGATAGAGTTTGGAGAACCCCTCTCTTAGGAGCAAATTCTTTTGAGTAGAATGACCACCACCTTCTGCCTCCTCCTTCCTACCTCACCCATTTATATATTTACCAAATATAGCCATTTATATTTACCAAATGTACCAAAATATGAAGCTGAGTTGAGAAAACCAAGGCCCACCAAGATAATGGGGTCCCCCTTGCAATGGGAAGTGAGAGGAGAATCTAGGTGTCAGTCCCCAGCTGTCCTCCACCTCCTCCCTCCCTGGGTCTTCCTGAGAAGGGGCCTCATGGGCCTGGGTGCTGCTCCAGATGGCACTCTGGACGGAGCAGGGGAGCCATGGTCTTTCTGGGCTCAGCTGTCTGTCCCTCCCACCCCCACCCCAGGTCACTGGCAGTAGCTACTGCTTGGAGCCAGTGGGCTGGAACCCTCCCTCCCTCTTTCCCTCTCAGGCTATAATTACTTGTGCATTTCCTGTCCCTTTCCTAGCTTGTAGAGGCTAGGTGGGGAGTAGGGGGAAGGTCAGGGGCCAGGACAATGAGGTCACTGGAGGATCCCCTGGGACCCAAAGTAAGGGAGAGAGTGGAGGAGGCTGCCAGGCTCTCTCCTGACTCCCTCAGTCCCAGAATTGGAGGGCTGGTATGCGAGGGGAGGCCAGAAAGGTGGGGGTGAGGATCAGTGGAGTGAGAGATGGGGTCAGAGGCACAGAAACAAGGCCCCTCCCCCACCAGGTATATGTGCGTGAATTGATGATTAGAGGGAACTTAGATTTTTAGGGCTCGAGGCAGGGGCCACATCCTCTCCTGAGGACGTCTCTGGGGAGTAGGCGTGAGGTGGTTTCAGCCCATTGTGTCTGTGTTTAAGAGACTCTGGGTCCCTGTGAAGCTATTAATTCTCACCTGTGGGATGATGCCTTTGGCTGAGGGGGCTCGGATGAGGGAACAAGTGTCTGGCAGGGAGTGTGCACACACAGGGCGATGGGTGGATGTTGTAAGGACGTGGAGCCCAGCGTCCCAGGAGGACGGTGCTGGGAGTTACCCAGGCCATGGCCACCTTTAGAAAGCTGAGGGGGAAATCCATCAACCTCCTGAGGTCTGAAGAGAGCACTTTCTGTTCCCATTAGACCAGAACAAGAGAAAATTAAAGCAGGTTACAGCTGGAGACCCTGAGGTTTGATACAGAAAGGACTTAACAACCATGGCAAAGCTGATGCTGGAACAGTATGGAAGAACGTCTCCTTTGATAAACATGGGGTCGCACAGAGTCGGACACGACTGAAGTGACTTAGCAGCAGCAGCAGGGGTACATGAGATTATCTGATGCCTGGGAGCCAACACAGAAACCAATCTATCTAGAGGCAGGGGCAAGGTCGGGATGACCTCTGGTGGGTCCCCTAAGCTTAGAGAACCCTGAGATGCTACTCTTTGAGTGATTGTTTGGGGAGAGGTGGCTCTATTCTCTAACTCAGAAAGCATGCTTTCATTCAACCTGTCCAAATGATGGAAGTAGTTAGTGTTTGTGCAGTATTTATATCTGAAGTGCTATTATGAGCTTTAATCACATCAAATAATCTCACAGAAGCCTGAGAGATACCTACTAACGCCATCATTTCATTTTATAGATGCAAAAGCAGAAACACAGAGAGGCTAAGTGACAGTCTAGGGTTACACAGCTGCTAAGGGACAAGCTGGGCTTGGGTCCGAGACAATCTGGCTGCAGAGTTCAAGTCTGTGGTGTATATTCTCTTGCTACAGAAGGTACCATTGACCCTCCAGAACCTCACCCTGCCTCATGCATCCTTTCCCAGTCCCATCACACACAGCCCTGGCCTGAGACCCTAGCCGTGGCTTAAGGGAACTGGTCTGACGGGTCCCCATGTGGCTGTCTGGCTCTGTGCCTGCCCCTCCAGTGTGACTCTGACACTCAGTGACAGGGAGGGGGGTGGGGCAAGCCATGGCCCTGTGCAGGGAAACTAACTATAGGACCTCTTCTCCCACCCTGAGTCCTTCGTGTCCAAACCTGACAGGAGGTGGTGGGTGAGGGCCTCCACCCCTACCCATACCAGCCACTGCTTTCTAGCTGAGAAGCCCCTAAGCTGACACTCAGGGTCATCAGATCAGGTACAGCATCAAAGTACAGCATTTCTTGCACCGTGTCCAGGTGATAGCTGCCCATCGTGAAAGAGGAGTTATATTAAGTTACCATTGACTAAGTAGTTACTGCAAAGCAGGCATGGCTTTGAATGCTCCATATTATTAATTAACTCATTTGATCCTCAAAATTACCCTATGGGATAGGTACTATTGCCACCAACCCCATGTTATAGATGAGGAGGCTGGAGCACAGAGAGCTTTATAAGCAGCCCAGGGTCACACAACAAGCTGGTAGTGGGGAACCAAGATTTGAACCCAGGCACCTGACTCCAGAGCCCACACAGCTGACCGCAGCCCCTGAATAGCACCCCCACCGTGATCCCAGGAGGTCCCCATGCATAGGAGCACGGCAGGGGTTCAGAGGGACTATGATGACACACACACGGGACTTCATCTAACCCAGGATTGTTCAGACTTCCCTGCCGGCGGAACATTCCTGAAGACAGAATTTACCATCGTGCGCAGTGGGGGAGGCCCAGCACCAAGGAGGTGCCATGGGCAATGGTAGGGCTTAGTGGCTAAGACCATGGGCTTTGGAATCAGGTGGGCACAGGGTGAATTCTGGTGCCCCTATTTACCAGCTTGAAAAGGGCAGGTTACATAACCTCTGTGCCTCCTTTTCCCTAGCCAGGAAATAGGAGACAAACACCTACTTCTGGATCAGTGTTAATAACAATTATTCAGTAGGATCGGACATTTCTAAGCAGTTGTGTGACTCTGGGCAAGTTACTTCATCTGTCTGGGCTCCTGCTGCTTTCCTTAGGAAAATAAGAGGGGATGCCTTCAGGTCTCTTCCTTAGCTCTGATGGGCCAGCGTTCCAGCTCTGAGCCTCCTGCACGTCCCCTGGGGCAGGACAGGAAATGGTTGAAGCAAGGCCTGCGGATCTGAGATCTGAGTCTTGCCCAGCCTGGCCACGTGACTGGGCACCTCCCCTCCTGATGTGCCCTCCACGGTCAGAATAATACCAGGAAGGGAGTGTGTGCTGGAGCCTGGGTCCTGGGCACCGAGGGGCGTTGGGGGGACTGAGGCCACCTGGGTACTCTGACATGAACAACAACGAGTCATGAGCACTTGGCACTGTTTGTTCCAACACAGGAGGCTGGGGGGTAGCATTCCTGCCCTTCCTCCCTCCTTGGCTCCTCCTCCTCTTTTCCTGTGCTATCGCTGAGTCCCCAGGGCCATGTCTGGCGGTAGGATGGGCCCCATGACTAGGGTAAGGATACCTCTGGGACACCTAGCAACTTCCGCCCGGCACTGGGCCAGGTGCCTAGGCATGTCGGACCTCAGGCCTCTGCCTGGCGCACAGTGGGAAGATGCTGGGACCAGGGGAGAGGGCTTGGGCGCCAGGCCAGGTCCTCTTCAGGCCCTGAGTGCTGATAGGGAGGCATCGCAGAGAAGGAAGGGGAGGGAGAGGAAACAGGCAGGTGTACTGGGTGGAGTGAGACCGAGAATGTGAGCACTTCTGGAAGGGCTTGAGTTTATCCCTGGCTGTCTGGCTATGTGTCTGAGTTACCAGGGCACATCACCTCTAGAGTTTTGTTTCTTGATAAGTCAAGGAGGACTGACCTTGCCTGCTCTGCCTACTTCCTGTCTGAGCCTATTCTGTATGAAGTCAGATGAAATCACAAGAAAGACATGCTGTATGAACTATCCAGTGCCTGCCTTTGGGAGGGCTCCTAGAGGGTAGGGCATCCTGCTCAGGGGTGTTCACAAATTCCAGTTCTCAGATGGTAGGAGAGGAGCGTGAGAGGCTTTTATGACCGACATCCCAGGGCGAACAGGCCTGTGAGTCCGGCATGGCCTGATGGATGCCAAGGCAGGGAACCTCGTTCACCAATGATTCTACATAAACCCCATTTCCGGAGCCATCCCATGTGCTACCAAGCCTGACTCACGTTTGAAGGGTTAGGGACCAGCAGCAGCATCTCGGAGAATAAAGGGCCTTCCAGCAGGCAGCCCGCCCTGTGCTTCACAGATGAGTAATAATAACTAACGTGCACACACAACTGCATGTATATGCCAGTCAGTGCTTTAAACATTTGATCTCTATTAACTCACATAATCCTTTCCAAAGCTTGAGTTGTTATTATGAATGTTTTATAGATTCATAGGCAGGGAGAGATTAAATCATATATTCAGGGTTACATAGCAGCAGGGACTAGAACCCAGGAGTTGGCTCCAGGGTTTGTGTCTTTAACTACGAGGCTGCACCGAGGCCCGCAGAAGGCAGGAGGTTTGTCCATAGTCCTGTGACTGGGGACCGACCCTGGCTCGGCATCAGGCCGTGGGTCTCCGGACCTCCTGAGCTGCTTACTTCCTGGCCTTCTTATCTCATGTCCCCATGCTCCCCCAGGTCCACTGTGCCCCTCCCTGCCCTACACGCTGAATTACCTGGATGCCTGGGCACAGTGGGCCCTGAGGAAGCAGAGCCTGGACCTTATCCCTGGGGATGCGCTGATGGAGTCATGAAGGAAGACACGGGTCCAGTAATAGGGCTGCAGGGTGGCGATGAGGCGGATGCCTGGCATATGGGGGGGTTACCCAGGGAGTATTTGTTGAACCGTTAGCTAAATGAATGTCTGGAGTCAAGAACTGGGCCGGGGCTGGGAGTCACAGTGGAGGAGCCCGAGAGCTGGGTTTCAAGGCCTGGCACTAACACTCAGACTCCCCACTGCCCTCAG
Seq C2 exon
ACGCCACTCACCAGCAGCGAGGAGTCCCTGGATTTCAGTGTGAGCCTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006828:ENSBTAT00000008976:2
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]