MmuINT0162913 @ mm9
Intron Retention
Gene
ENSMUSG00000028364 | Tnc
Description
tenascin C [Source:MGI Symbol;Acc:MGI:101922]
Coordinates
chr4:63656575-63661219:-
Coord C1 exon
chr4:63660947-63661219
Coord A exon
chr4:63656848-63660946
Coord C2 exon
chr4:63656575-63656847
Length
4099 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
AAATTCTCTGCCTTCTTCAGAGG
3' ss Score
7.06
Exon sequences
Seq C1 exon
GGACAACTCCCAATCTGGGAGAGGTCACTGTGGCCGAGGTGGGCTGGGATGCCCTCACGCTCAACTGGACTGCTCCAGAAGGAGCCTATAAGAACTTTTTCATTCAGGTGCTAGAGGCTGACACGACCCAGACTGTCCAGAACCTCACAGTCCCAGGAGGACTGAGGTCAGTGGACCTGCCTGGGCTCAAAGCAGCCACCCGCTACTACATCACCCTTCGAGGGGTCACCCAGGACTTCGGCACGGCCCCTCTCTCTGTTGAGGTCTTGACAG
Seq A exon
GTATTTTAGACCGGTTCACTCCTTTTCTCCTCTCCCTGTCTCTGCTTAAGAGGAATCCCATCTCTAAATGAGACTTAGACCCTTCCATGTTGGGGAAATCCTAGTGAATCACTTCTACTTCAATATCTTATCCCTTATTTGGGCAGGTCCTGCTCTTAGTCTAGTAGACAGCTCCAGACAAAATTCCACCTACTCTTCTTTTTCAAAAGTGAGAGGTGACTTCTCTCGAAAAGTATGTTTCAAATTATAATATCTAAGAAACTTGAAAGCAAAATTTGTAAGTGAAAAATAAAATCACTCTGAGCTCATTTTACAAATACTCAAGAGCTTCCCATAAACCTAGTGGTATATCAAGAATGGAAGTTTTGAGCTCCTCCAAAAACTACCTTCTATTCCCAAAGGCTGAAAGAAAGCCTTGGCTTTAATTCTAACAATTGGAGTGTGCTCAGTACTGCAGTAAATCACACATCTGTAGTCAATACAAACCAAAGAGCTCATCTCAACTTTAGTCAAACCCCATCTCACCTGAACCCCAGAGAGCAGTTCCCTTTATAGTAACGTCATCCCTGTGTATTCTCATGCAGAGAAGGTTCCAAGTCTGGGAAATTTCACAGTGACTGGACTGAGATGGGATGTTCTCAAACTGGACTGGAACATACCAGACAGAACTTATGACCAGTTTATCACTTGAATCCAGTAGAATAGCCAGGCAGAATGGGCTGGCCTTATTATTCCTGGTCGCCTGTGTTCCTTTGAAGTCCCAGGCCTCAGGGCTGGTACTCCCTACACAGTCACCCTGCACTGCAAAGTAAGGGGCCTCCATACTAATGCACCTGCTGTAGAGTTCATCACAGGTACATGACCATTCTGGACTGGATTTTTATATATGCCAGTCTGGCTGTTCCCAGAATAGCAAAACTCCCTCATAGGTAGGTCTTGCCTGAATATGGTTTGCAGGCAACATGAAACTGTGACTTAGCAGGTCTGGATTAGAATTCTGTAGTACTGGCTGGATGTTTTCCTTTGCATCTCTGAGCCTTTTTTTCTTGCCATTGAATCAAAAATGATACCCTGCTTTAGTATCCTTCCATGAGCAATGGATGGACTAAGAAATGAAAGGGCTTGACAAAATGTTCATCATCTAGCCAGTGTTGAACAGCTAAGTGAGTAGTTGTATTATTCAGGGTCTTCTAGAGAAACAAATTATAGAATGAATATATATGAGATTTATTACGGAATACATATGGGATTTATTATGAATATAAATATTGAATTTATTAAAATGGCTTACAAACTGTAGTCTAGCTAATCCAAAAATGGCTGTCTACCAACAGAAAGTCCAAGAATACAACAATTATTCAGTCATGAGACTGGGTGTCTCACCTGTTCTTTAGTATGCACTGCAATCCTGAATACACAGGCCCTCATGCCAGAAAAAGAATGGACTCACCAGCAAGAGTGAGAGTAGACAGACAGAGAGGGAGCCTCATTCTTCTGTGTGTTTTGTAAAGGCTGCCAGTTTCATAGAGGTTACCAGCAGAAGGTGTGGCCCAGTTAAAAAGTGCTTCTTCCTACCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTGGATTAAAGATATATCTTCCTGTCTCAAGAGAGCTGGATTACAAGTGGGTCTTCCCACTTCAAATGATTTCATGAAGAAAAAAATCCCGACAGGTGTGTCCAGCTGGTTAGGTTTTAGTTCATTCCAAATGTAGTCAAGTTGACAATCAAGAATCGCCTTCACAGTTGTCAACCCAACCATGGGAAGACAAAGCACAGGAAGTGGGTATTTTTTTGGTGCAGGAGAGCAGAACTTTTCAGAGAAATCTTTTCAATACTGCCCTCAGAGACATTAAGTAATACCCAATTCCGAGTCGGATCCCTTCAGATCTGGAAACTGATCTAGTCATCTTATGCCGAAGTCATCTAAGCCCATTTCTGAAGTGCACTTAAAGTAAGAACCTTTCTAAGAAAAGATGGTATGTTTAAGTTCCATGTTTTCCATTTAAGCTGAAGAGAAAAACAAATTCATCTCAGTCCTTGGAATGCCCCTTGAAATATGCTGTTCCATCTATCACACAGAGCTTTATGCTATTCCAAGGAGGATGGAATGAATGGTAAAATTTGTGGTGATAAAGTTTTGATGCTGTACCCCTCTCCATTTGCCTTGTATCCTTGTATTTTGATAATGCCATCAAATTACCTAATTCAAACCATCAATTTTCCTACTTGTTTATATATATATAAAGTAAACTTGTCCATTGCTGTGATGTACACACATACCAGATATAAGGAAGATGATTATGTTCATTTACCTAAGTCAGCCAGGTTATCATGTTGCCTTATTCCTGGACTGGGTTGAGATAAACAAAGGTCGTCTGGGATGTCTGCTCTAGGTCAGGGATGCTGATGAGCTACGTGTACAGTCTGCAAGCCCTGCTGCAGCTGCCTAGCTCCTTTAGTAAATGGAATGTTCTGGTGAAGTCTTTCGTGCAGTAGATAAACAGTTCTCAGCAAGTGCACTTCTGTCCCCAGACCTCTCAGAAAACCCTGGGTCAGTGTTGGGACATCTTCCCCAAAGGATCCTGGGACACTTAGGAACAAGAATTATACACTTCTTAAAAAAAAAGGCTAAGATCTCTAACTTCTAATTCATGGCCACTTCTGCCTTAGGAAGATGGATAAGGGTATACTTCAGTTTGTAAAGGGCTTGCCTCTCATCCTTGAGGACCAGGGTTTGATCCTCAGATCCTCATAAGGGTATAGAAGTATAAATACTTAGAATCTCAACTGAGAAAATGGGGGCAAGAGGATTATATTGATGATTTCTGGAGAGCCAATCTAGTTGAAATGGTGTGTTCCAGATTCAGTCAAAGACCCTGCCTGAAACTAAAGTTAGGAGTGATTGAGGAAGACATTTGATGCCAACCTCTGGCCTCCTGCACACAACTGCATACATATAAACACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCTCTCTCTGTCTCTCTCTCTCTCTCATACACACACACACACACACACACACACACACACACACAAATTAGAGCTGAGACTGTACTGAATCCCAAACAGTGAATTTTTCCATACCCCAAAGTTAGACTTTCTTAATCAGCAATAACTGAAGATCGTTCTTACACAGTTAAAAAGAACAACTAACAGTGGGCCCTGCTTTGCACATGTACTAAGCAATACAGACTCACTCTTAATTAAAAGTAAGCAAGCTGACTTCACACAGCCTTGCTTTGTGATGCAGCCATGCTTCATGCCAAGGGTTAAGACAGTGGGAGAGTGCAAGCCAAGCCAGGAATCTATTACGTAACATCATGTCCTTGAAAGTTGCAGAAAAAGCTCAGAGATAAACCAGACCACCTGTCAAAACTTGGGAACACGAGTTCTTCAGAAGCCCAAATACAGAGCAGGTAGCCAGCCACAAGATGTCCCTTCACCTCAAGTAATAAAATGAGGCATGGCTTCGCATATGACTAAGATATTCCAAAACACATCAACAGGCTCTATGTTTTATGTTGCCATTTATCAGACAGTTTCTGTGCCTTGTGTATGACATGAAGATGCTAATAAATATCAGGTAATCACAGAACCCAATGAGATGGTACTGTCACTTCTACTTAAAACTGAGGCTCAGAGAGAAAGCCAGACTCCCAAGATGATACAGCTTGCCAGGTCTGTGGACCTCCAACTCCTGTGCTTTGACTACTCCTACTTCCTTACCCCTCTACAATCCCACATTGTCCTGGTGCCTCTAGCCACTGCCTGTGCATTCCCAGAGATTTCCATGCTTCGGCCTTTCAAGGAGGAATGATGCAAAGTTTCCTTTTCTGCCTGTTTCAACTCTTCTCCAAAACCATAACCAGAGTAGCAAAAATCTGAATACAGAAATACCCGGAGATCAGGAGCTACAGAAACAAAACACTCTTTCTCTCCCCTTCTGCTTTTCTGGAGTAGGGTTGTGGGGCATTCGGCTGCCTTGCTTGGTTTGCAGCACTAACAGCAAATTCTCTGCCTTCTTCAG
Seq C2 exon
AGGATCTCCCTCAGCTGGGAGGCTTGTCTGTGACTGAGGTCAGCTGGGACGGCCTCACACTCAACTGGACCACAGATGACCTGGCCTATAAGCACTTTGTCGTTCAGGTGCAGGAGGCCAACAATGTGGAGGCCGCTCAGAACCTCACGGTACCCGGCAGCCTCAGAGCTGTGGACATCCCAGGCCTCAAGGCCGACACCCCTTATAGAGTCTCCATCTACGGGGTCATCCAGGGCTATAGAACACCGATGCTCTCTACTGACGTCTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028364-Tnc:NM_011607:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.076 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=89.1)
A:
NA
C2:
PF0004116=fn3=WD(100=88.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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
Other AS DBs: