BtaINT0122018 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004194 | RALGDS
Description
Bos taurus ral guanine nucleotide dissociation stimulator (RALGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_001101978]
Coordinates
chr11:103126162-103128442:-
Coord C1 exon
chr11:103128328-103128442
Coord A exon
chr11:103126373-103128327
Coord C2 exon
chr11:103126162-103126372
Length
1955 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
CTCTGCCCCTTCCTGACCAGAGC
3' ss Score
8.12
Exon sequences
Seq C1 exon
GTGACCAGCCAAGACAAGGCTCCGGCTGTAATCCGCAAGGCCATGGACAAACACAACCTGGATGAGGACGAGCCCGAAGACTACGAGCTGGTGCAGGTTATTTCGGATGATCGAA
Seq A exon
GTAAGTCAGGGCTGGCTGGGTGGGCGTTGGAGCGGGGGGGAAGTAGGGGGGTCACCATGCCCCAGGCCTGCCACCCCAGAAGGTCCCACCAGGGTCAAAGCAGGTTTTGCCCAGACACTGACCTGCCCAAGGTCTCCCTATGGCCCCCACTGGCCACTGGGCCCTGTCTCATGCCCTTCCCTGGTCACTTACAGTCAGTGGGAGACCCCGATCAGCGCTGGCATTGTTGAGGAAGGGAGAGAAAAGGCTTTTCTCCTGGGGCAGGCAGCCAGATGGCTGAGCCCACAGGCCGTCTGAAGAGGCACTTTCTGGCTGAGATGGAAAGTGTGTCCTTCAGGGAGAACCATGCTGGCCAGGACCAGAGCCTCGACTCTGAAAGTCCACGCACACGTGACCTTGTGTGAGCTTGTCCTGGCCGCTGTAACTATACCACTGCGGTGGCTTCTGAGGCCCGGGTCAGGGTGCCAGCGTGGTCAGGTTCTGGTGAAGGCCCTCTTCTGGGTTCCTGGTGTCCCCACACAGTGGAAGCGGGTAGGGAGCTCTCTGGGATCCCTTTTATAAAAGCAAACATCCCCTTCATGGGGCTCCACCCTCGTGACCTCATGGCCTCCCAAAGGCCCCACCTTCCAATCCCATCACCTTGGAAGTTGGAATTTTGGGGAATTTAGAGAGAACACAAGTTAGAATTCGTAGCAGATACTGAACACAGAGACTACAGGGAAACAGCTTGGTATTCTAGAAAGGGGAAACAGGGAAAGATCGGGAACAAGCACAGACTTGGAGCCAGGCAGCGTCGGCTTGGAGACCTCAGGCAACTGACTAGAGTCCTTTGTGGCTGTTTTCCCATCCCGAGATAAGATAGGAGATATGATAGGCGGTGAGCTAATCCACGTGTATGTGGATTGTATGCTCACACATGCACGTGTACAATCAACACACCAGAGCTGCAAATGCCGTCACTCTTCCCATCTTTCCCATGAGCTGATCGCCCACGCACAGCCATTACCCAGTTAGCAGTGACCCCTACAGTCCCTAGAAAGCATTAGTAGTCATTCAGTCGTGTCTGACCCTTTGCGACCCTGTGGACCGTAGCCCGCCAGGCTCCTCTGTCCGTGGAATTCTCCAGGCAAGAATGCTGGAGTGGGTAGCCTTTCCCTTCTCCAGGGGATCTTCCTGACCGAGGAATCGAATCCGGGTCTCCTGCGTTGCAGGTGGATTCTTTACCATCTCAGCCACAGTCCCTGGAAGTTATTTTCTAAATCCTCTGTCACCTTCTTGCACCATTTTAGGTGAGGTGAACAGGGTGGGTGGGACTCACCCATCTTACAGAAAACGAAGACTGAGGCCTAGCCAGGTCAAGGACCAGAGTAAGAGCCACACCATGGAGCCCGGAACACACATTCCAGCCCAGCTGTGCGGAATAGCCAGCTTAAGGCGGAGGAGAGGGTGGGAAGCAGAGCCAAGAGCAGCTGCCTGCTGAGATCCTGGCACCCAGGGGGTGTGGAGGCCTCCCTGAAACGCTGCGCTGGGCCAGAGGCAAACCCTGCCCTTCACAGAAACCCAGAGCCCTTGTCCTAAGTTGGGTGGGTTTCAGGGGAGGTGGTCTGGGTTCTGGAAAACTTACTCCACCTGGAGAATCCTGTTCATTGGAGGCAGCAGGGGACAGGACAGGGCAACCCTTTGCCAACTGCAGGCCGAGGTGGGGCTTTCTAGAGTCAGAGCCTGTTTTTAAACAAGAGTCGTTGGTTTCCATTGGTGCCTCAGTAAAGCGTCCCAGGCAGGTGTCACTACGAGGGGTCCTGGGTGGCCCTGGAGTTGCACTGGGCGCCTCGTGTCTTGGATCAGGCCTGCCCTCGGGCAGGGGTAATCAGAGCCCCTGACTGGGGCTCTCAAGTGGTGCGGTGTGCTGTGGGGTTCCCGTAAGCCCAGCTGACCCTCTGCCCCTTCCTGACCAG
Seq C2 exon
AGCTGAAGATCCCTGACAACGCCAACGTGTTCTACGCCATGAACTCTACCGCCAACTATGACTTTGTCCTAAAGAAACGGACCTTCACCAAGGGGACAAAGGTCAGACATGGAGCCAGCTCGACCCTCCCCCGCATGAAGCAGAAGGGACTCAAGATTGCCAAGGGCATCTTCTAACCAGTCCTTAGCTGCCAGCCACAGAGCCGCCCTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004194:ENSBTAT00000032653:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.551 A=NA C2=0.198
Domain overlap (PFAM):
C1:
PF0078818=RA=FE(43.2=100)
A:
NA
C2:
PF0078818=RA=PD(31.8=47.5)
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:
GTGACCAGCCAAGACAAGG
R:
GCTCTGTGGCTGGCAGCTAA
Band lengths:
318-2273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development