BtaINT0122037 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023843 | RALGPS1
Description
Bos taurus Ral GEF with PH domain and SH3 binding motif 1 (RALGPS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001193100]
Coordinates
chr11:97970912-97975506:+
Coord C1 exon
chr11:97970912-97971003
Coord A exon
chr11:97971004-97975476
Coord C2 exon
chr11:97975477-97975506
Length
4473 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GACTGAGCTTTCTCTTCTAGGTA
3' ss Score
9.58
Exon sequences
Seq C1 exon
GCAATGTTTACAAGTTCCAGACTGGCTCCCGGTTCCATGCAATCCTGTGGCACAAGCATTTGGATGATGCATGTAAAAGCAACAGGCCTCAG
Seq A exon
GTAAAGTCACCAAAGTCCTGCTTGTCACCTGAAATACCCTCTCCCACCCTCGGGCAAGGGTCCACAGAAAACACACCTTCCTCCTTCCCCCAGAGACTATCAGCGAGGCTCCCAGGGACTCTCTTTTGATCAGCTTTTCCCCATGAGACAGGGCACCCCCCATCTGGCTTACAACTAAGCCCAGCTTCAGACTAGAACTTTGAACCTGTCTCCCATGTCTTTGCTACTAAAGGAAACACCACAGAAACATCCCATCAGAGACAGGTGACAGGTGGGGTACTGCCCCATGGCTCAGGCTACAGCATCTATTGAGGTCATCCCCCTGAAAGTTGATTTTTGGGCATCCTCCAACCTGACCAAAGGGTCTCCCTGCCCCCCACAGCCCTTAGGAATAAGGATAATAGCTAACTTGTTGAGAGCCAGCCATGGCTGTTGGTGAGTGGGGCTCCCCACTCCTTGGCATATTTGAACCAATGGGACTGCTGGTTTGCCAGGCCCTGGCTTGAGGCTCGCTCCCACCCCGATGCCACTGCTCCCAGGACCAGGCTTGAGGCGAGATGCTTTACGTGTAGGAATTGGCCGAATCCTCCCAGCATCCCTGTGGGGTAGGTTCCCGAATTGTCCCCGTTTTATGCTGAGGTCACTGAGGCTCACAAAGTGGTTGACCCTGGTTTAGGGCCCCCTGGTGAGTGAGGTCTCACCCCCTCCTGCCTGACAGCACAGTCTAGACCTGCCACCCCTGAGCTCTTCCACCACAGGCATCCCCAGGGCCCCTGACTTGCTCAGCCTCCTGCCATCGAGCTAGAGGCCTGGAAGCAGAGACTCCACTGTCCAGGCTTGTGAGAGAGGTGGCCACCCAACCCTCACACCAGCCCAGGCAGCGTGTGGGCCTCTGGGACCAGAACCAATGCTCCTGGCCCTGAACTTCCCTGACCTGTTCCCCAGGATGAGCTGGAAGAGGGTGGCGGTGGAGGAGCTTGGTCCCTCTCCTCTGTCTAGAGAGCCAGCATCGGAGCTGGACTAGAGGGAGGCAGCTTTGAGGAGGAGGATGGTGGTGCGGAGGCCACACCAGACGTGTGGGGCCAGGAGGGCCAGGGCTTCCGTGGTGCTGGTCGCAGCTCAGTCACAGACTTCTCAGCCCCCAGGGTGGTTCTCACGAAGCAGAGGGAGGTCTCTAGTGGCATGTCCCGTGATTCTGTGTTCAGTGTGGGCTCATTCAGTATTTTCATCTGTAACATAGATGTGGAAATGTATGACAAGCTGATCAAATTAGACATGATAAGAAGCTCGACGGTAGAATTAGCAGAAAGTCCTCGACAAACTAAAACAGGAGGGCAAGACTGACACAGGGATAAACTTGAGGCCCCACAGGGAAACTCAAGATAAATTGCGTTTGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGATTCCCAGGGACAGGGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGCTTGGAGTTGGACACGACTAAAGCGCCGTAGCAGCAGCAGCACTCACTTGCTAGGAATTTGTCCCTGGGCACATGCTCACACATACACACACAGGCTTGTGGTCAGAGTGTTCACTGCAGCATTGTCCTTAATAGAAAGAGAGAAAGAAAAGCCACTGGAAACCTTGCTGACCCTCAGTATGTCCCTACTGTGCAGCCCCTGATGTGTGTGTGATTACCTAAAAGCTGCTGCAAGTCACATGTGAGAAAGCTTAAGTGTAAAAATGCATGTCAGGATGATCTCATTTGTATTAAAACACACATGCATATTTATCCTATGCATGGTGGTGCACGTAACGTTAGTGAAAGAGCATACAGGAGACTACACTTTTGAAGTTTCTAGAGCATGTTTTTCACATTAAGCAAATGTAACTGCCCGTCCCCGTGATGAGGAGACCAGGGTCCTGGGTTGACAGTCACCTCAAGGTGATAAACAAAGTGCCACCTCAGGTCCCCTTAGGAGAGGAAGAGCCTCCTGCCCCCCTCTGCTCTGGTTACACAGTGCCTGCAGGGCCCCTCCTTGGCTCTGAGGGCACGGCGCCTGGAGCTCACCTGTACCCAGGTGGCCCCAAGGAGTGACAAGAACTGAAGCCCTGAAGTGGGCCCCACAGTCGGTGGGGCGGAGAGAGAGGCAGGCCCTTCCTCGGTGTCTGCCCCACAAAGACAGTCGTGGCTCTGAGGAGATGGGCAGTCAGGAGCGGGATGGTTGCCCTGAACAAGAGCCTGTGTCCTGATCTGGGGGCTGGGGGGCAGCCTGAGGGAGGCAGCAGCCCCGCAGCAGGTAGCTGGGACCTGGGTCAAACCCACTTAGCAGGGGAGGTGTTTTGTGTGAAGGACAAATGGATTGCAAACCATGTCTGGCAAGTGCTGTCTTCCCGCAGCAAGGTTTTGCAACATTGAAGTATTTTTGTCCAGTTTTTAGACCTAAGGGAGAAGGTCTTCTATTTTTTAATACTTTTTATCTCTAATTTACTTTCAACCAAATATTCCTGCTGTCTGCTGTATGTAATAAAAATGGCAACATCTAAATATTCCACAGCAGGGGATTACTGAAACAAGCCACAATACCTGCCTGCGATGGCACGCGAAGGGGCTGCAGAGAAAGGTGATACAGAAATGCATCTTCTCCCGTTGAAACTCTCAGTGCCTGAATGACTTTTTTGTGGAATTGCATTTCTTAAAATCGTCTGTGATAATAGGGAATATGTGCGTTCGTGCGTGTGTGTGCTAAGTCACTTCAGTCGTGTCCAACTCTTTGTAACCCTATGGACTGTAGCCAGCCAGGCTCCTCTGTCCACGGGATTCTCCAGGCAAGAATACTGGATTGGGTTACCATGCCCTCCTCCAGGCGATCTTCCTGACCCAGGGATCAAACCCTCATCCACGTCTCCTGCATTGCAGGTGGATTCTTTATCGCTGAGCCACTGGGGAAGCCCAATAGCGAGTACGCTTAAACTTACTGATGGCATGTATATAAGGTGTAAACCACAGCGATAAAGCAAATAACCATGTGCCCCGACCCAGCCTAATGGCAAGACTTCCCAGGCCTCAGAACACCTCCCTCCCAGGGGGGTCTTCCAAGTTCTCTCTCTCCCACCCACTTGCACCCCATAACCGCATTCCTGATTTGTTTGTTTACTGTTGCTGTAAAGCATTGGCACTCGTATTTGATTGCTTTATGCATTATCTGGGGCGCACTTTTAATTTTTTTTAATGTTCATTATTCATTCATTGATTCATGTGTTTATTTGGCTGTGTCAGGTCTTAGTTGCAGCAGGCGGGATCTTTCGTTGCCGCGCACAGACTCTAGTTGTGTTGCGTGGCTCAGTAGTTGCAGCACACAGGCTTAGCTGCCCCAAAGCCTGTGAGATCTTAGTGCCCCGGCCAGGGATTGAACCCATGTCCCCTGCATTGCAAGGCGGATTCTTCACAGAGCTATTACTGCATAGCTTCTTCTGTGACTTGCTTTTCTCCTACTGTATGATCCTAGGATTCCTCTGTGTCAGTGTGTAGCTGTGATTCGTTTGTTTGTAATTTCTTATCACTTCTCCTGTCCGTGATCCCAAGAAGGATTTCCTGCTTCTTGCTATTTTGAACAGTGCTGCCACGACCATTCTTTTAACTGTCTCCTGGTGCAAGGAGATGCATTTTTTCCAATTCATCATTTTGACCAAATTGACACCAAGATGGATTTGTTTCTGATGAAATTGCTTCTCATCAAATTTCCTGGAACCCCACGGCCATGCTGGGGAGGAGGCCTGGGGCTGGGGGCATGTCAGCAGCTTTGAAGGGAAGGAGAAGCACCGTGATCTTGGGGCTGAGGGTCCCCCAGTAAAGGGAGCTGGGATCTGGTCCTGGGGACACAGCATGGGAAGGTCTTGGGGTTCCTGACATCCCCAAACTTCCTCCTTCTGCTTGTGCTTCTACTTGCCAACTCCTACCATCCGCTAACCACCCCTCTTCTCTCCAGAGGCATGGGCTTACCCTACAGGCTCAGTCACCTCCTCCTGCAAATGCACTTGTGCTTTGACCCAAGGATAGTGGTTGAGAGCGTGGGTGGTGATGTCACAGCCCTGTCACTCACCCGCTGTGTCCTTCACCTCCTTAAGCCTCAGTTTCCTCATCTTTATAATGGGAATAATTCCAGTACTTGCCTCCTGGGGTTGTTGTGAGGACACAGGACACAATACTGATGGGGTTCTCAGAGCCCTTCCTGGCACATGGTGGCCCCTTAACATATGGCGGCTGTTACTATTGCTGTGTCCTCTCCCCATCCCCACCCACTCATTCACAGACTGACTAGGAGAGGCCTGAACCCTTCCCTTAGGGACCCCTCCACCACCCCCCAGCCCCAGCCCCTTCCAAAAGGTCGGAACTTTGACAAGAGACTGAGCTTTCTCTTCTAG
Seq C2 exon
GTACCTGCAAACCTTATGTCATTTGAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023843:ENSBTAT00000061364:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=PD(22.3=80.6)
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]
SPECIAL DATASETS
- Pre-implantation embryo development