MmuINT1033595 @ mm10
Intron Retention
Gene
ENSMUSG00000035274 | Tpbg
Description
trophoblast glycoprotein [Source:MGI Symbol;Acc:MGI:1341264]
Coordinates
chr9:85842865-85847040:+
Coord C1 exon
chr9:85842865-85842955
Coord A exon
chr9:85842956-85843650
Coord C2 exon
chr9:85843651-85847040
Length
695 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTCTCTCCCGCTTGTCCCAGGTC
3' ss Score
9.61
Exon sequences
Seq C1 exon
GAGAGGAGAGTCGGCGCCCGCAGCAGGAGCTGGGAAGGCGCGTGGACTCGGGTGGCCCTCGGAGTTGGCTTTGCAGGCGCGGGGTGCGGAG
Seq A exon
GTGAGCAGTGGGGACCGAGCGGCCAGGTTTGGAGCCTGGAGGCGGGACCAGGGTTCCTTTCTATACTAGGGCGTGAAGAGAGCCGGGGGGGGGGGGGTCCTGGCTGCCACACCGCCCACGGTCCCACGGCCGCTTTGTTGGCGGGTTCCCTCCGTTTTTCTGGAGATGTCTGGATCCTCTCGGGATCGGGGAGCTGGGTGGCCAGGAACTGGGGAGTCGAGAGTAGGCGACAGCTGTACGGCTCTGCTCCCCTTTTCACACTAATCCAAGGAGGTACCAAAAAAAAAAAAAAGCTCTTAAGAGTCCCGTAACCCGAAACTTCGCTCTCATCCCAAGGTGGGAGGGGGAGGAGCGGCGGGGGCGGGGACCCCGGAAGGCAGGTGGTCGGCCGGGGCGGTAGGAGCTGGGATCCGGAAAAAGGAGAAGTTTGCTCGCTGGACACCGCGGGGTCTGCGTGAAGTTCTAGGCGGGAGGAGGGCAATCCGGGCAGGAGCCAGGCGGGAGGTGGCCCGGGTCCTGATGGTGTGGGCCCGGAAGAGGTAGGCTTAGCGCCTGGGAGTGGGGACCGCGTCCCACTAGGGAGGAAGGACGCACACAGAAGCTTGGGCCGGGTTGCTAGTGTGGGGACTACTTGGTTCGTACTCGGGGAGCTGCGGCCGTCACTCCTCCTCACGCTTCTCTCCCGCTTGTCCCAG
Seq C2 exon
GTCGCTCATCCGATCCTGCCCTGAGAGAGGCGCCAACAAAGGAGTTGAGGAGGTGCCACCCACCCCAGCTGCGGCGGGAGGAGGAGCGCCAAGGCCCGTGTCCCGACCCGCCGTGCGTACTCACTGGAGGGAAGGGCGGGGTGCCGCTCCGGGAGGGGGACGCCCGGTGGCTCGGGGTTAGCCAAGTTCCAGCTTTTGGCGTCCCCTCCTCTGCTCCCACGCGAGGAAAGTTTGCCGTCGACGCTTGCGGCCGGCTCGCGCCCGCCGGGCCCAGGCGGTCGAGTCTTCGGAGCGGGCGCTGTCCCAGCTCCGGGGAACCGCGAGCCGCGATGCCTGGGGCGGGCTCCCGGGGCCCCTCCGCCGGGGACGGACGGCTGAGGTTGGCAAGGCTGGCGCTAGTGCTGCTGGGTTGGGTCTCCGCGTCGGCCCCCAGCTCTTCGGTACCCTCGTCTTCCACCTCCCCGGCAGCCTTCCTGGCCTCGGGGTCTGCGCAGCCTCCGCCAGCCGAGAGATGCCCCGCGGCGTGCGAGTGCTCCGAGGCGGCGCGCACGGTTAAGTGCGTGAACCGCAACCTGCTGGAGGTGCCGGCGGATCTACCGCCTTACGTGCGCAACCTTTTCCTTACCGGCAACCAGATGACCGTGCTCCCGGCGGGCGCCTTCGCCCGCCAGCCGCCGCTCGCCGACCTGGAGGCGCTCAACCTCAGCGGCAACCACCTGAAGGAAGTGTGTGCAGGTGCCTTCGAGCATCTGCCGGGTCTGCGCCGGCTTGACCTCAGCCACAACCCTCTCACCAACCTCAGCGCCTTCGCCTTTGCGGGCAGCAACGCCAGCGTCTCGGCCCCCAGCCCCCTGGAGGAGCTGATCCTGAATCACATCGTGCCCCCTGAGGATCAGAGGCAGAACGGGAGCTTCGAGGGTATGGTGGCCTTCGAAGGCATGGTGGCAGCAGCTCTGCGCTCAGGCCTTGCACTCCGAGGTCTTACACGCCTGGAGCTAGCCAGCAATCACTTTCTTTTCCTGCCTCGGGACTTACTAGCCCAACTGCCGAGTCTCAGATACCTGGACCTCAGGAACAATTCCCTGGTGAGCCTGACCTACGCATCCTTCCGCAACCTGACACACCTCGAAAGCCTCCACTTGGAGGACAATGCCCTCAAGGTCCTTCACAACTCCACCTTGGCTGAGTGGCACGGCCTGGCTCATGTCAAGGTGTTCCTGGACAACAATCCCTGGGTTTGCGACTGCTACATGGCTGACATGGTGGCTTGGCTTAAAGAGACAGAGGTGGTGCCAGATAAAGCCAGGCTTACCTGCGCATTCCCGGAGAAAATGAGGAATCGTGGCCTCTTAGACCTCAACAGCTCTGACCTGGACTGTGACGCTGTCCTTCCCCAATCCCTGCAGACTTCCTATGTCTTCCTAGGTATTGTTTTAGCTCTGATAGGCGCTATTTTCCTCCTCGTTTTGTATTTGAACCGTAAAGGCATAAAAAAGTGGATGCATAACATCAGAGATGCCTGCAGGGATCACATGGAAGGGTATCATTACAGATACGAAATCAATGCGGACCCCAGATTAACAAATCTTAGTTCCAACTCGGATGTCTGAGAAACCGGACCCGTCAAGGAGGACTCTGCATGAGGTGTAGACTTAAGGGTTTTTTTTTCCCCTTTACTAGGCTTGCTCCACTTCCACACTTCACCGTAGACACTATTGACTTTGATCCTTGTTATGTAAAATCCCGGTGTGTTCTGTTAATGTAAGGACATGAACAACTGCACATGTTTATTTTCCCTATTCCTTTCGGTACTCCTCGATGCCTGCGGAGGGATTGTTTTTTTTTTTTTTTCCTCTCTCTCAAGTCGCAGCATGGACTTGGATTAGTTCAGTTCAAGGTGTAGCACAGATAACATTCAACGGAAGCTGCCTCAGTTTTTTTTTTTTTTTGAGAAAAGTACTTTATTCATAAATATGAGTTTCATCCTCACCTACCTAAATGATGGAGGAAATATTGCATCCCCAAACTGCCTGCAGACCGTAGCAAGCTCTTACATAGAACTTTGTAGTGCATAAGAGCACCTGCATCCAAGAGCATGCGTACATTTTACTGTTCTGCATATTAAAAAGAAAAAGTTGCAACTTCAGATAACTTCTTTGACAAACTAAATTACTTTTTGATTGCAGTTTATAGGAAACTGACCTGAGATTTTTCGGTGTTTTTTTTTTTTTTTTTTTGTTTGTTTTGGTTTTTTGTTTTGTTTTGTTTTTTAAATAAACTGCATTGAGATCCAACAAACTGGATTGTTATAAAAAAAATCAATAAAAGAATCTTAAAAGAAGCATGTTGTGTTTAACTTTGGTATTTTGAAAGGAGGATTAAGGGCAATGGTATTGAATAGTCTGGATTCAAATAATACTGGAGTTATTAGTTAGCAGAGCTGAGAATCAGCCTGGAGCAGTGCCTTCATATAAATAGACTGGAGAGAATTCTGAAATGATGGATTCTTTTAGGGCTTAAGTGGAATTAAGGTTATTTATAGGGTCATAGTATTAGAGGTCCCCAAGTTAACGGTGTTCATTATGTGTTATTTAAAAGAGCATTGGGAGGTTGGTAATAGTGAAGAGTCCTTTATGGTAAACATGTCACAGCTGCCACTTTGTCTAGACTAATTTAGTTGCTGAGACAGAATCATTAGCCAAACTGAATGAAGTTGCTCCATGGAATTTGAGAGCCAAGTGTGAGTCATGTGGTGGCAATAAATGTGTGAAAATAAAGTATCTTAAAATATTTTGAAGTAAAAAAAATCTTAAAAGACAAATTAAGAACAGTATTTTCAGAGATCATAAATTGTAGTTCAGAGAGCCTCGAGAATCTGCTTTTAAATTTTCAAAGTGGAACATTGTGTTTCTTGGAGTTATTATGATTGTGTTTAAGGAAATAACCAAAGATACATCCTTGTATCTAGAGACAAATATTATAAGTAGTTATTAGATTCTTATGTTCAGTATTTAAGAATTTGAGGGCTTTTTAAAGAAGGCCCCTCAGCTCTGAGCACCATGTAAGTAAATGTATATACCTCCATAAGGAATAAATCATACTTAGGTATAAATTAAAGCAATTTCTCATTAACATTCTTGTCATCCGATACTCTTGTCTCGTCTCTATCCCGCCACCCCTCTGCCATCATGTGCCACTTACAGTGAACAGGAAGTGTCGTTAACCTGTCTCCAGGCCATCGATTGAAGGAACTGAGGTTCAACTTTTACTTCAGATAGGAGGTCACTTGCGTCAATAAATGTTAAGACCCGTTTTCATGCTAAGTGATTCATGTCTACATTTGCTTTACATGTGAAATAAAACTTACGATTTGCTGTTTTTATAAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035274:ENSMUST00000098500:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
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)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
GAGAGGAGAGTCGGCGCC
R:
CGTCGACGGCAAACTTTCCTC
Band lengths:
334-1029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types