BtaINT0142026 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002658 | STAM
Description
Bos taurus signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 (STAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001076842]
Coordinates
chr13:32422671-32427132:+
Coord C1 exon
chr13:32422671-32422817
Coord A exon
chr13:32422818-32427041
Coord C2 exon
chr13:32427042-32427132
Length
4224 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
ATTTTTTTTTTCTGTGTTAGGCT
3' ss Score
8.97
Exon sequences
Seq C1 exon
GGTCATCCTAAAGTATGTGAAAAATTGAAGGCTCTTATGGTTGAATGGACGGATGAATTCAAGAATGATCCACAGCTCAGTCTGATATCAGCAATGATTAAGAACCTGAAAGAACAGGGTGTTACATTTCCCGCTATTGGCTCTCAG
Seq A exon
GTATTTTATAGACATGTGTGTACGCTGCAGTTTGTTTCTAAAGTTAACCATGTTTATTTGAATTTTTCTTTTTTTCTTACAAACCCAGGTAGTTGTTAATACTCCAGAGGAATTTTATTAATAATAGTAATCTTGCATATAAAGGTGCCCAAAAGAATATATAGTGGATTGCTAATGTTTTCCAACTTCCATTTCCCCAATGTTTCTTCTTTTTAAATGAATTAACTGTTTTGTTTTTTAAGTTTTTCTTTTAATATAATTTTAATGATACAGAGCAAATTGCTTTATTAGTTAGTACTGACATTCTTGTTAAATGCTCTTCATGCTGTAATTTTATCTACAAAGAATGACAGCTCTGAAATAAAGTTTCCTTAAAATTTAAGGATGTGTTTAGAGGTTATTTGGACTATGAAATTTATGAACACCTGTATTAAATGGGAGGGAGATATAAAGGGCTCATTAGGAGGGGAAACACATAAAACATCTTTCCCATTAATAAGAACTGACCAGCACAGAAGTCTTCTTTCTTCTTCCTAATAAATATAATTGACTGAAAGGCTTAATTTCCCTTAAAAAAATTATTTATGTAATGGGCTCAATCTCTAACTTATGTCATATAGGAAAAAAAAAATGAAAGGGGACGTTTTTTATTATTTTTCTTTTCTGCGTAACCATTATTTAGGATGTCCACCTGACTAAGCAGGCTTAAAATGTCTGGTAACTTACTGTATTGTCTTTCCCCACTATACTGCTTGGGGTGGAATGTAATGAATGATGTAATAACATGAGTGGAAAACGCTTAGTTGTGAAGGGCTTGCATTCAGGGTTTTGGCCGTTTCAAGGGAATTATGAAGTGATTCATGTAGACTTTCTTCGTAAGGCACTTCTGATTTATCTAAGTCCTCTTGAGATGTGAAGATCCAGAAATATATTTTGGAAATGAAAGAAGAAAAGGATATTTTTCTTCTTACTTAAAAAATTAGCATATGACTAATTTTACAGTGATAAATTATGTCTTGAGAAGTAGTCATTCATAATTGATAGCTCGTTTTTACAACTCAGTATAATTTCTAAATCTCTGTAGTTAAGGAATAATTTTATGCAGAATAATCCAAGATACGGTATAATAACATGACAACAGAAGCAGCGTTTAATTATCAAAGACTGTACTCACTATGGAGAATGGAAGAGTGTAGCTACTTAGTGGAGTGTCAGTTTCTGTACCCTGAGAACCTGTTCTAGAGCTTATGCTCACAGTGTAGTTCGTGGACCATCAGTCGTCATCATCAGCTGGAAGCTTGTTAGGACTGTCATCTCACTCATGTGTGGAAACATACCACACCAAGCAGTGGATTCATCAGCTCCGTTTAAACAAGATCTCCAATGATTCTGTGCACATTAAAGTGTGAGCAGCACTGCTCTTAAGGACAACTTTTAGTGCAAGTGAAAACTGCATTCCTATAAGAGAAGGAAGGAGAGTTAATCTGGTTGATCCATAGCTTTGCTGGGTTAACCTCGAGTCTCAAGTAGTTGTGGGAGCCACTTTAGTGATCCTCTAATCTAATCCCCTCATTTTACAGATGAGGGTACTGAGCCCCAGAATGGTTAAGTGACTTGCCCAGGGCCACAGCTAGTGGTTGACAGAGCTGGAACAGGCCTTCCAACTCTCAGTCCAGTGTTCTTTCCACTACACGATCCTGCCTTCCGTTTGCTATTGAGGTTAGTAGATATGTGTCTGTCCGGACTAGGATTTGAAGGATAAAAAGTGGAGTGAACACTGGGAAGAGTGCTTACGTACTGATGGGTGTAGACATGGGATTCCTGTCTTGTTCAGAAGATTCAAGATGTAGATTAGCAGTAGGAAAGAGTGACTTTTTTTCATGTAGATGTTATGAAGTATGTGAAAGCTCATTCTGTTATAGCTGCTGTGTTTCACCCACAGGAAATACGTAAAATGCGTATAAACTATGATGAGGTAGAATGGTGTTTTATTTTATTTTTTTTTAATAGTAGCTTCTGAAGAGCTTGTTTGTCATTGAAAATCCTGTTTGTAAAGAGCTCCTTGTTTAATTAAAAAAAAAAATCTGTCATCTGGAATCAACTGCAGAAGTCCCTACAAATTTTATAGCCACTTAGTCGCTTATGCTTACAACATTTTAGTCAGACTAGATATTTGTTAGCATATTTAACAAAAGCCTCTGGAAACATGAGGACTTTTTTTTTTTAAGTATGGTTTGTCATCCAGGTACAGAAGAAAATAATGTAAAAATATTAAGAAAAGTCATCCTGAGTCACCTGACTCTTGCTGCTGTGGTTCTCTCATAGCACTGACTTTTGACCTCAAGGGAGCAGTGATGCTGGCTCTGCTGCTGCGTTTGACTGGTTAATAAGACAAGTAGCATTGCTATACTTGGAACCTGATGATAGAAAGGAACTTTGAAAAGAGAGCAGTTCAGGAATGTAGAGCTTAATATAGCTCAGTTCTGCGCTTCCTTCTTGACCAGTAGAGATCCCTTCACAGACCATAAAAGATCTATATGTTTAGTTTGTGAAATTCACTAAATTGTGAAACAAAAAGCATATATTATGAAAAAGGTTCTCTGATGAAGCATACCTTCAGTGTTAAGAGGTGTGTGATAATAAAACATTTTTATCCAGGGAAGGTTACAGCTAGAGGTGGGTCAGATTGAAAATACTTAATGTTCTATTCAGTGAGTCCAAAAGCTCTTTTCTTATCAGCTTTTCTAAAAATAAATGCCTCGTGCATTTGTTTGACATTATAAAATTTATTATGTGAAGACTGTATTTACTATAATGTTGAATATTTTGCCTTTCATTTAGTCAACAATCATTGCTTATAATATTTAGGGCCATATGCCCTCAAGGAGTTTCCCTGGTAGCTCAGTTGGTAAAGGATCTGCTTACAATGCAGGAGACCCAGGTTTGATACCTGGGTGGAGAAGATCCCCTGGAGAAGGAAATGGCAAGCCACTCCAGTATTCTTGCCTGGAAAATCCAATGGACAGAGGAGCCTGGTGGGCTACAGCCCATGGGGTCACAAAGAGTTGAACACAACTTGGCAACTAAACTGCCACAACAGCCCTCAAGGAACACACATCCTGATTATGGAGATAGACATGTAAGCAGCCTCATTCTGTAGAGGAGGAACTTGAGACACAAGGAGGCTTATGGGCTCCAGGTTCGTGCATTAGAAGGTGGTACATCTGGGACATACACTGCGTTGGCCTGACTCCACAGCCTGCCTTCTTATCTACCCATGTCCTAGGACCTTGTTGAAAATCAGAGGAACGCAAAGGAGGAGATGCTTACTTAGAGGGTTTAGGAATGTTTCACTGATAAAGTGATATTTTAGCTGTTCCCTGACTTTTGGGTTGAAACTTAGTAGGAAAAAATGTGGATGGAGTAAAAGGAGCTAGAGGGGAAGACGTTATGAGTAGAATCAAGTGTGTGTCAGAGGCGTCAAAGTGTATGTGTGTGTACGTGCGTGCCAGCAGTTCTGGTAAATGATGGAATGGTTGAAAAAGGAGGCTGGAGTCTAATTCTCCTTGATGGCCACCAAAAAGTAAGCAGTCATTCAGGCTTTGGAAGCTTTGTGATTCTATAAGCATGAATCAATGTGTATGTTTGTTTACTTGTCCAGTACTTTATTTACAAAATATGTTTAAGATGGACAGTAATATATTGTCAACATTGACTACTAGTATTTTAGTTTAGAAGATAGTATAATCTTATGAACATTTATATTATTATATAGAAATTTGGATTCCTGACTTCTGAGCTGGAAGGAAACAACAAAATATAACTCTTGTCTAGATGTTTTAAAAACTACTTGTTTTAAAAGTAGTCATCTCCTTTCCCCTCGCACCCCGTTTTCTAGTTATAAAAATTTCCAGAAATGTTGAGATCTCCTCTAGCCTGTGTTTGCTGGTTTACATACTGGCTGCCTTTAGTGTCCCCTTTTCAGTCACATCTGGCAAAGTGTGGTTGTTCTGACATCCCTAAGAAATGAATGCTCAGTCTGTTTTCTCCAGTCCTGCCTCAGCTCTGTCTCCTTTCAAAGTGGAGACTTCTCCCCCTTGGATTTCTTTCTTGTTCAGAAGTCTGGTGGATTAATTCAAGGAGGGGTCTTGTGAGTTCTTAGATTAATGGGAGTAGGAAAATTTGAGAACAGCTTTCAAATATCATTTTTTTTTTCTGTGTTAG
Seq C2 exon
GCTGCAGAACAAGCGAAAGCAAGCCCAGCTCTGGTAGCCAAGGATCCTGGTACTGCGGCTAACAAAAAAGAAGAGGAAGATTTAGCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002658:ENSBTAT00000003441:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.677
Domain overlap (PFAM):
C1:
PF0079014=VHS=PD(28.9=79.6),PF136461=HEAT_2=PD(29.0=73.5)
A:
NA
C2:
PF0280915=UIM=PU(50.0=29.0)
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