MmuINT0162930 @ mm9
Intron Retention
Gene
ENSMUSG00000028364 | Tnc
Description
tenascin C [Source:MGI Symbol;Acc:MGI:101922]
Coordinates
chr4:63669648-63674258:-
Coord C1 exon
chr4:63674102-63674258
Coord A exon
chr4:63669918-63674101
Coord C2 exon
chr4:63669648-63669917
Length
4184 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
GGTTCCTTTGTTGGTCTCAGGCC
3' ss Score
7.02
Exon sequences
Seq C1 exon
AACAAAGAAGATGAGGGAGAGATCACAAAAAGTCTGAGGAGACCAGAGACCTCCTACCGCCAAACTGGCCTTGCTCCTGGCCAAGAGTATGAAATATCTCTGCACATTGTGAAAAACAACACCCGAGGCCCCGGCTTGAAGAAAGTAACCACAACCC
Seq A exon
GTGAGTACCAGCCAAGACCTGTGATAGAGCTGATTGTGTCTCTTTGCAACTTCTGGCTTATAGCATACCCTCTGACACAGCATCTGCATCAGTGAGAATTTGCTTACCAATACAAAGTCCATATGGAGTGCCTTAAGTGATAATTCTGCAGGTTTGCGATTTGGACTTGGGCTCAGCTGTGTGATGCTTGTCCTTGACTGGGATCACTTGTGCATCTTTGTGAACTGAGACTGTTTGGCCTAGAATGGTTCCAGTTAAGACAGTCACCTGTAATCCTTGCACTCTAGAAGCTGAGACAGGGTATTAGCATGAGTCATGGCCATCCTGGACTCCATGGTGACTTCTAGGATGATATAAGCTATGGAAGGAGACACTGTCACAATAAAACAAAAGCAAAGCATAATGAGATGGCAATTTTTTTTTTTTATCCTTGGAGCCTCCTTGTCATTGGGTTAGCCGGGGCATGGTGGCATGGCTGTTGAGTAGACTCAAAATTGACATTTCTGTCACTGCTGTCAGAGGAAATTCTCAGGCCAGGACACATGGGAGAGACAGAGAAACAGATGCATCCCCTCTCTGAAGCTCCTCAAAGGTATATTCTCAGGACTGTAGATGCAGAAAAGGTAACCATGGAGACGATCACAAGTCATCTACCACACGAGCTCATTTAATCCTAACACCAAGTCTCCCATGACAGAGGTGAGGTGTATACGGATGGTACTGTGTATGAAAACGAGTGAATACGCCTTGGGGAAGTTGAGTCACTTTAACATGATGTAGGCCAGACAGTCATGACTCAAGCACAGCTGAGAAATGGAGAAAAGAGGATCCCCAAGGCTTGCTGATCAGGTCAAGGCTAGCCAGGGACCCTGGCTCAAGGAGTAAGTTGGACAGTCCAAGGAAAGATGCCTAAGGTTGATCTCTGGCCTACAGATACATTCACACATACATATACACTCACATACAATCTTTCACACATACACACACACACGTACATCAAACACATACTCTCATACATGCACATATAAACATGTATACTCACATATAAACACATGCTCACATATACACTCACACACACTGTCACAGTCACACAGATACTCACAAACACACACAACTTTCAAAAATACACATATACTCAAACAAAGTCTCATAGATAATTTCAAATACACACACACACTCACACTCATACATCTTTCACTTGACACTAATGTCCTTAGAAATTCGTGGGGTCAAGTAGGATTTAATAAACTAGAGACTTCTATGGGATATAACTGAATTTAGAATTGTTCTAACAGTTTTGTTCTTTTTAAAAAACAAGATACAGGAGAAATGGAGAAAGAGATCCTGCATTGGCATTTAGAAGGAAAATGTCTCATTTTCTTCAAGAGAACAGAGGTGCCAGCTCTTTAAGAAATCAACTCTGGTTGGCAGGGGGTGCTGGGAAAGTTAAATCTGTTGACACATGACAAAAAGGAACATCTTGCACTTAGATGCTTGCACGTTTTGCATAGCTCAGGGCCAGTACGCAGGACTGTCTCCTTCATAAGCAAATGTTTTCCATCATCCTGACAACAGCTCTCTGTGGTAGGTAGGAGGCAGGTACTGACAGGAAAAAAATCATTAGATCACCAGCAAGGCAGAGAAAAGATCAAGGAAATGCTTATCCACTGTAGGGAAAGTACACTGAAGAGGCAGGTGACTTTTACCTGCCCTTTCCTCTTTAATCCAAATTATTTAAGGCTTGGCTGCTTTGTATTCTGCTTATTAAGGGACAAACCCCCAGCCTTTGAAGTTCCAGAATATGTAAATACCAACGTTGATGGACGTGCACTTCTCTGTTCCTTTTGTGACCATTTTTGAGCATTTTTGCAGAGTTAAAGGACCTTAATTTTTTGGTGCAAATCATGTTTGATCCCTTCTCCCTGGCACCTCATTGAGGTTTACTGTGATCATTCTAGACACAAAAAAATGCTGACAAGATCCATCATCCTGTGATGATGAAGGGATGTGGTGGTCCTGAGTTTAAATCCCTTCCTTGCCATTCTCTTTCACTTTGGAACATCCTACTTCTTTAAGCCTTAGATCCAACGTTTGGAAAACTGGGTTCATAGCATCTTTCTCATCAAGTTGTCTTAAGCTCAAGGCACAGATGGCACAACACCATGGGATGTGGTCAGCAGAGAGTTATGTCAGTCTTCACTATTCCGAACACAGAGTTGGGGTTATCAGTATCCCTAGCCATACCCTTAGCAGTGTAAGTGGGTTTGTGGCTGACAGCTCTGAGAATGGAAGACAGTGTCACTGTCTAGGTAATAGCATCATTTTCATGATGTGTTTTGTGGATTCATTAAATACTAGCTGACACATAACCACTTAGACTTCAAAAATGAACAACACAGCATCCTCACAATCTATCAAAAACTTGGTCCTTTTCCCATACTCTGCATGAATCCTGGCTACTTCCATTTAAAAACACTTAGTGGATGGATGCTAAAAGCATAGACTAAACTGCTTTTAAAGATAAAAATAAACTTATACATTAAATGCCCAGGATGACCTGAGGATCGTGAAGGCCAAACATCCATTTTCTGAATGAATGAATGAATGAATGAATGACCCAGTCTAAATGTAACCTGTAAGGGTCCATGATTTGCTGAAGAATGACACCCCAGACTCAAATAGTATGTAAAGCAAAGAGTGTTTTATTCTGCAGAAGTACAGCATGATGGGGTCTCCCATTACCAAATTAGAGAGACAACCAAGTGAGCTTGCAGGCTCAATTTAAAACACATTGGAGTTCCAGGGCAGATGAGCTTTGTCTTACGCTGTCTTTAGGCATTCTGGAGACATTATCAGGGAGTGAAGCTTGGCCATTTTTCTTCCCTCTTAGTAATTGACTGGCTTGGGCTTGCCTGGACTTGCCCAGTTCTTAGGCCTAGTCAACTCATCTGCCAATTTGGAGTCTGTCATGCAATCAGCCTAGCCTTCTCAACCAAACTGTAAAAACATCTGTGACAAGACAATGAGCAGCAGTAGCTACAAGGAAGAGGATGTATGTACCCTACAGGGAAGAGGATCTGTGTACTGTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTATGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGAGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGTACCCTACAGGGAAGAGGATGTGTGCACCCTACAGGGAAGAGGATCTGTGTACCCTACAGGGAAGAGGATATATGTACCTGGTTGACATGAAAGGCAAAGAGGAAAAGGAAATCTCAATAGATGGAACAAAAGAATAGCCTTGTCGAGACCAGGAGGTGAGGAAGCATGAAATCCAGGTGTATGGGGCAGGAAGTGAGTTTAACAGGATGACACAGGAATCCCCAGAATGAGGACAAAACAGGCCATGCTTGAAACAGAAATTACTCTTGCCCTGGTTCCTTTCATCAAAAACATTTTTTGAGGCTGGCTCGGTGGCTCAGTTAGGGTAAGGGAGCATGTCAAGCCTGATAATCTGAATCCAATCATCAGGTCCCTCCTGCTAGGAAAGAACCAACCCCAGAAGACGTTTTCCTCTAAATTCCACACGTGGGCTATACAAAGACATGCAGCACTCACATACAGACACACTCAGAAATACATGCACAAAGAGAGACATGTATGCATAAGCAACACATATATAGACACACTCACACACACACACACACACACACACACACACACACACACACACACACAGACATACACAACACCAGCAAAGGAAAGGCTTTCATCACCCATCACCTGTATGCCAGGTTCCGTTCTCGATGCTTTATAAGCTTTCTCTGTTTTACTATTGGAAAAATGAGGGCAAAAGCCCTCCATGTAGATCTTACAGTCCCTCCTTTCAGCTTGCCAGACAGAAACTGCAGCTCCCAAGGGCAAAAGAAAGTAAGGGGTCATTATGAGTCAAATGTCTACTGTGGTCTGCTGCAAAGTCCCCACTACTCTCAACCCCTTCTGCCGGCATTGACCCTTTGGTTCCTTTGTTGGTCTCAG
Seq C2 exon
GCCTGGATGCCCCCAGCCATATTGAGGTGAAAGATGTCACAGACACCACAGCACTGATCACCTGGTTCAAGCCCTTGGCTGAAATTGATAGCATTGAGCTCTCCTATGGCATCAAGGATGTACCTGGAGACCGTACCACCATCGACCTCACACACGAAGACAACCAGTACTCCATCGGGAACCTGAGACCTGACACGGAGTATGAGGTGTCCCTCATCTCCCGCAGAGTGGACATGGCAAGCAACCCTGCCAAAGAGACCTTCATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028364-Tnc:NM_011607:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.415 A=NA C2=0.319
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(53.7=83.0)
A:
NA
C2:
PF0004116=fn3=WD(100=89.0)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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: