MmuINT0164057 @ mm9
Intron Retention
Gene
ENSMUSG00000035274 | Tpbg
Description
trophoblast glycoprotein [Source:MGI Symbol;Acc:MGI:1341264]
Coordinates
chr9:85735987-85740662:+
Coord C1 exon
chr9:85735987-85736199
Coord A exon
chr9:85736200-85737257
Coord C2 exon
chr9:85737258-85740662
Length
1058 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTCTCTCCCGCTTGTCCCAGGTC
3' ss Score
9.61
Exon sequences
Seq C1 exon
ATAAACTGAAGTTGCCAGCCAAACCGAGCCACGAGAGAGGAGACTTTCTGAATCTCCCTCACAACCCAGGCGTTTGCCGCGGCGGATGTAACCTGTGCAGCTCCTTCTTCTACTGCTGCTTTGCTCACGCTTAAATCCCTCTCCTCACTGCCAGCGGTGCCAGAAGCAGCGTGAATTCCAAGAGGTCCACCAGCGGTTTTGTTTCTGTCCGAG
Seq A exon
GTAAATACGCTATGCAAAATACGGAACCACCAAAGGATGCCGGGGAGGGGGAACAGAAGGGGAATCCCTCACCTTCTCGGGATGCGTTGCTCATTTATCTCCGCCTAGGGGAGTCGCCCAGCCTAGGTTGCCCCTCGTATCCCTCCCTGAAGCCCCTACCTGGGGCAGCAGAGGTGGCCAGCGCGGCGGCGATCTCTCCTGCAGCCCTGGCCCTCCCCCGCCCCCCGGCTTGGTTTTTCCCAGCCGTGGAGGTTGGGCCAGGGGCTGGGGTTGAGAGGAGAGTCGGCGCCCGCAGCAGGAGCTGGGAAGGCGCGTGGACTCGGGTGGCCCTCGGAGTTGGCTTTGCAGGCGCGGGGTGCGGAGGTGAGCAGTGGGGACCGAGCGGCCAGGTTTGGAGCCTGGAGGCGGGACCAGGGTTCCTTTCTATACTAGGGCGTGAAGAGAGCCGGGGGGGGGGGGGTCCTGGCTGCCACACCGCCCACGGTCCCACGGCCGCTTTGTTGGCGGGTTCCCTCCGTTTTTCTGGAGATGTCTGGATCCTCTCGGGATCGGGGAGCTGGGTGGCCAGGAACTGGGGAGTCGAGAGTAGGCGACAGCTGTACGGCTCTGCTCCCCTTTTCACACTAATCCAAGGAGGTACCAAAAAAAAAAAAAAGCTCTTAAGAGTCCCGTAACCCGAAACTTCGCTCTCATCCCAAGGTGGGAGGGGGAGGAGCGGCGGGGGCGGGGACCCCGGAAGGCAGGTGGTCGGCCGGGGCGGTAGGAGCTGGGATCCGGAAAAAGGAGAAGTTTGCTCGCTGGACACCGCGGGGTCTGCGTGAAGTTCTAGGCGGGAGGAGGGCAATCCGGGCAGGAGCCAGGCGGGAGGTGGCCCGGGTCCTGATGGTGTGGGCCCGGAAGAGGTAGGCTTAGCGCCTGGGAGTGGGGACCGCGTCCCACTAGGGAGGAAGGACGCACACAGAAGCTTGGGCCGGGTTGCTAGTGTGGGGACTACTTGGTTCGTACTCGGGGAGCTGCGGCCGTCACTCCTCCTCACGCTTCTCTCCCGCTTGTCCCAG
Seq C2 exon
GTCGCTCATCCGATCCTGCCCTGAGAGAGGCGCCAACAAAGGAGTTGAGGAGGTGCCACCCACCCCAGCTGCGGCGGGAGGAGGAGCGCCAAGGCCCGTGTCCCGACCCGCCGTGCGTACTCACTGGAGGGAAGGGCGGGGTGCCGCTCCGGGAGGGGGACGCCCGGTGGCTCGGGGTTAGCCAAGTTCCAGCTTTTGGCGTCCCCTCCTCTGCTCCCACGCGAGGAAAGTTTGCCGTCGACGCTTGCGGCCGGCTCGCGCCCGCCGGGCCCAGGCGGTCGAGTCTTCGGAGCGGGCGCTGTCCCAGCTCCGGGGAACCGCGAGCCGCGATGCCTGGGGCGGGCTCCCGGGGCCCCTCCGCCGGGGACGGACGGCTGAGGTTGGCAAGGCTGGCGCTAGTGCTGCTGGGTTGGGTCTCCGCGTCGGCCCCCAGCTCTTCGGTACCCTCGTCTTCCACCTCCCCGGCAGCCTTCCTGGCCTCGGGGTCTGCGCAGCCTCCGCCAGCCGAGAGATGCCCCGCGGCGTGCGAGTGCTCCGAGGCGGCGCGCACGGTTAAGTGCGTGAACCGCAACCTGCTGGAGGTGCCGGCGGATCTACCGCCTTACGTGCGCAACCTTTTCCTTACCGGCAACCAGATGACCGTGCTCCCGGCGGGCGCCTTCGCCCGCCAGCCGCCGCTCGCCGACCTGGAGGCGCTCAACCTCAGCGGCAACCACCTGAAGGAAGTGTGTGCAGGTGCCTTCGAGCATCTGCCGGGTCTGCGCCGGCTTGACCTCAGCCACAACCCTCTCACCAACCTCAGCGCCTTCGCCTTTGCGGGCAGCAACGCCAGCGTCTCGGCCCCCAGCCCCCTGGAGGAGCTGATCCTGAATCACATCGTGCCCCCTGAGGATCAGAGGCAGAACGGGAGCTTCGAGGGTATGGTGGCCTTCGAAGGCATGGTGGCAGCAGCTCTGCGCTCAGGCCTTGCACTCCGAGGTCTTACACGCCTGGAGCTAGCCAGCAATCACTTTCTTTTCCTGCCTCGGGACTTACTAGCCCAACTGCCGAGTCTCAGATACCTGGACCTCAGGAACAATTCCCTGGTGAGCCTGACCTACGCATCCTTCCGCAACCTGACACACCTCGAAAGCCTCCACTTGGAGGACAATGCCCTCAAGGTCCTTCACAACTCCACCTTGGCTGAGTGGCACGGCCTGGCTCATGTCAAGGTGTTCCTGGACAACAATCCCTGGGTTTGCGACTGCTACATGGCTGACATGGTGGCTTGGCTTAAAGAGACAGAGGTGGTGCCAGATAAAGCCAGGCTTACCTGCGCATTCCCGGAGAAAATGAGGAATCGTGGCCTCTTAGACCTCAACAGCTCTGACCTGGACTGTGACGCTGTCCTTCCCCAATCCCTGCAGACTTCCTATGTCTTCCTAGGTATTGTTTTAGCTCTGATAGGCGCTATTTTCCTCCTCGTTTTGTATTTGAACCGTAAAGGCATAAAAAAGTGGATGCATAACATCAGAGATGCCTGCAGGGATCACATGGAAGGGTATCATTACAGATACGAAATCAATGCGGACCCCAGATTAACAAATCTTAGTTCCAACTCGGATGTCTGAGAAACCGGACCCGTCAAGGAGGACTCTGCATGAGGTGTAGACTTAAGGGTTTTTTTTTCCCCTTTACTAGGCTTGCTCCACTTCCACACTTCACCGTAGACACTATTGACTTTGATCCTTGTTATGTAAAATCCCGGTGTGTTCTGTTAATGTAAGGACATGAACAACTGCACATGTTTATTTTCCCTATTCCTTTCGGTACTCCTCGATGCCTGCGGAGGGATTGTTTTTTTTTTTTTTTCCTCTCTCTCAAGTCGCAGCATGGACTTGGATTAGTTCAGTTCAAGGTGTAGCACAGATAACATTCAACGGAAGCTGCCTCAGTTTTTTTTTTTTTTTGAGAAAAGTACTTTATTCATAAATATGAGTTTCATCCTCACCTACCTAAATGATGGAGGAAATATTGCATCCCCAAACTGCCTGCAGACCGTAGCAAGCTCTTACATAGAACTTTGTAGTGCATAAGAGCACCTGCATCCAAGAGCATGCGTACATTTTACTGTTCTGCATATTAAAAAGAAAAAGTTGCAACTTCAGATAACTTCTTTGACAAACTAAATTACTTTTTGATTGCAGTTTATAGGAAACTGACCTGAGATTTTTCGGTGTTTTTTTTTTTTTTTTTTTGTTTGTTTTGGTTTTTTGTTTTGTTTTGTTTTTTAAATAAACTGCATTGAGATCCAACAAACTGGATTGTTATAAAAAAAATCAATAAAAGAATCTTAAAAGAAGCATGTTGTGTTTAACTTTGGTATTTTGAAAGGAGGATTAAGGGCAATGGTATTGAATAGTCTGGATTCAAATAATACTGGAGTTATTAGTTAGCAGAGCTGAGAATCAGCCTGGAGCAGTGCCTTCATATAAATAGACTGGAGAGAATTCTGAAATGATGGATTCTTTTAGGGCTTAAGTGGAATTAAGGTTATTTATAGGGTCATAGTATTAGAGGTCCCCAAGTTAACGGTGTTCATTATGTGTTATTTAAAAGAGCATTGGGAGGTTGGTAATAGTGAAGAGTCCTTTATGGTAAACATGTCACAGCTGCCACTTTGTCTAGACTAATTTAGTTGCTGAGACAGAATCATTAGCCAAACTGAATGAAGTTGCTCCATGGAATTTGAGAGCCAAGTGTGAGTCATGTGGTGGCAATAAATGTGTGAAAATAAAGTATCTTAAAATATTTTGAAGTAAAAAAAATCTTAAAAGACAAATTAAGAACAGTATTTTCAGAGATCATAAATTGTAGTTCAGAGAGCCTCGAGAATCTGCTTTTAAATTTTCAAAGTGGAACATTGTGTTTCTTGGAGTTATTATGATTGTGTTTAAGGAAATAACCAAAGATACATCCTTGTATCTAGAGACAAATATTATAAGTAGTTATTAGATTCTTATGTTCAGTATTTAAGAATTTGAGGGCTTTTTAAAGAAGGCCCCTCAGCTCTGAGCACCATGTAAGTAAATGTATATACCTCCATAAGGAATAAATCATACTTAGGTATAAATTAAAGCAATTTCTCATTAACATTCTTGTCATCCGATACTCTTGTCTCGTCTCTATCCCGCCACCCCTCTGCCATCATGTGCCACTTACAGTGAACAGGAAGTGTCGTTAACCTGTCTCCAGGCCATCGATTGAAGGAACTGAGGTTCAACTTTTACTTCAGATAGGAGGTCACTTGCGTCAATAAATGTTAAGACCCGTTTTCATGCTAAGTGATTCATGTCTACATTTGCTTTACATGTGAAATAAAACTTACGATTTGCTGTTTTTATAAATAAAGTGGCTCAGGTTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035274-Tpbg:NM_011627:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0146213=LRRNT=WD(100=7.0),PF138551=LRR_8=WD(100=15.0),PF138551=LRR_8=WD(100=18.0),PF0146319=LRRCT=WD(100=6.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
TCTACTGCTGCTTTGCTCACG
R:
TCGACGGCAAACTTTCCTCG
Band lengths:
346-1404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: