Special

MmuINT0156869 @ mm9

Intron Retention

Gene
ENSMUSG00000053580 | Tanc2
Description
tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2 [Source:MGI Symbol;Acc:MGI:2444121]
Coordinates
chr11:105771517-105774401:+
Coord C1 exon
chr11:105771517-105771640
Coord A exon
chr11:105771641-105774225
Coord C2 exon
chr11:105774226-105774401
Length
2585 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ACTCTCACTCTTTTTTTCAGGTG
3' ss Score
11
Exon sequences
Seq C1 exon
ATTGTTGATCTTTTACTGACCCATGGAGCTGATGTCAACATGGCAGACAAGCAGGGTCGTACTCCCCTGATGATGGCTGCTTCTGAAGGCCATCTAGGAACCGTGGACTTCCTACTAGCACAAG
Seq A exon
GTAAGCCCTGAAAGACGGTGAACAGAGCCTGTAAGAATCCACTTAACTCCAGGCTCGTTAAGAATGATAGTACTAATTGGGTTAACTAGAAAATGCAAAGCTGGGCTGGAGAGATGGCTCAGAGGTTAAGAGTACTGACTACTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAAACACATGGTGGCTCACAACCATCTGTGATGGGATCCGATGCCCTTTTCTGGTGTGTCTGGAGACAGCGACAATGTACTCACATACAATAAATCTTTTTTATAAAAAGAAAAAAAAAGAAAACGCAAAACCAGATGCTCCTGCTCTCTTTTTTATTTTTCTCCTCCAGTTTTTTTCTTTAAGATTTATTTATTTTATTTATGAGTACACTGTCGTCATCAGACACACCAAAAGAGGACACCAGATTCCATTACAGATGGTTGTGAGTCACCATGTGGGTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAATGCTCTTGACCGCTGAGTGGTCTCTCCAGCCCCTCTCCTCCAGTTTTTTAAACTAAAACTCCAGGCTGGCCTTGAACTCACATTTGTTTCTTGCCTCAATCACCTAAGTATACCTGGTGTTCTCTTGCATGCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGATGCATGTGTGTGTGTTATATGTACATTTGAATGGGCATATGTTTTATCACTATGTAGACCAGGCTGACCTCAAACTTGAGGTGACCCTTCTATCTTAGCTTCTAGAGAGCAAAGTTTACATGTATACCTTACCACCCCAGCCTGCCCACTTACACACTGGGGAGTTCTAACTCTGACACTCTCTTTTTCTTTATAGCCTGAGGGATTATTATGAAATCAATACATTCTGAACTCTTTATTTCAAGTCCAGACTTCAATGTTTTTTTGATGTATACCCAGTAAATATCCATCTATTTTAGAGGCTGATTTGCTGTTGCTGCTGCTACTGTTGATGGGGGTGGGAGTAGGGTTGGGGGTGGTATGGTGTCTTACTATGTAGGCTGGCCTGGAACTCTCTCTATAGACCAGGCTGGCTGCAAACTCACACAGATCCACCTGCCTCTGCCTCCTAAGTGTTGGGATCAAAGGTGTGCACCAACATACCAAGTAAAGCTGCATATCAGTTTGTCAGCCTGCACAGCTAACATGTTTTTTCTCTAACCCAAAGGAGGTAAAGGGAAGTTAAGACACTTGCTAGCAATGAGACCCTCTTTAGAGAATTAGGATATTGCTATTAAGCTATCATAATAAATTCCCTGTGGTGCTTTCCAACATACTCACACCCTTGGTAAGTGGGAAACTGCATTTTCTCTACAGGTGCACATGGTAAATTATTTCAGCCTCTTGCTGATTGCCCTAAGCTCAGCCACCTATGCAATAGTGGCATCATAGACTGCCATAGAGAAAAGGCTCGTCACTAGTAGCACTGCAGCACCACCTAGTGGAGTCTTGGATTTGGATCAAGAAGTAGGTAGAAAGGCGATTGAAACTATGACATCATTCCAGTTAGCCTTCGCTGTTAATAAACCAACCTTAAATATATATAATTATCTATACACAGATGCACTTTCCTTTAAGGGATCCAGCCTTCTGAAGAACTGTGCCCAGACCTGAACAGCCAAAGTTGAATAGGAAGACTGGCTTCTCTTAAGAGACTTGCTGTGTCTTTAGCTCTATCTTTTCAAGAAAGATTTGTTTCCACAACCTGAGACTCAAAGGTGGCTAGAATCAAAAATTGTGCTTGCAGGGTACAGTGTAGCTCTTGCTTCCATGGTACAAGTTGCCAAACAAGTCTGACTTCATAGGGAACAGACCTAGGTTCTTAAGACGTGGCACAAAGCCACAAACTGTGTCCAATAGAAGAGGCAGGGCCTCTTCAGCACTGATGACCTTAGATGACTACTGTGTTTGCTGCATGACAGCAGACATTCATTAGGCATAGATGACAGAGGTTTGTTCTTCCTTACCCATGGTCTTTGAACCTTTTGTATTTTCTATTTAGGTTTTCTTAGTTTTGTTTTGTTTTTCACTTAAGTGAGTTTTCACTAAGTAAGTTTACATTATTTGTAGAATATTGTAGAATAGGAACTCTCAAGCAATTTTATTTTTTTTTAAGTAATCTATAATTTAGAGGCTGGTAGTACAGTTTAGCTGGCTGAGTGCTTGCCTAGCATAGCAAATTGATTCAAAAAAATTGAGTCAAAATTCAAAAGGCTCCAAGTTCAGTCCCAGTACCACAAAAACTGAACTGGCACACACTTATAACCACAGCATTCAACAGATGGAGATGTGACTCAGACAGGCCTTGAACTCACTGTGTAGCCCAAGCTACCCTCAAACTCCTGCTTACTCCTGCCTATTTTCGGGATTACTGATATATGTCACCATGGCCAGCCAGAGCCAATCTTAAAATGAAAAAAAAAAAAAAATCTAGAAGTAAAAGCTATTCTTCAATAGTATGTATACCTTAAATATCAGCATTCCTTTCGGCTACAAACTTTAGTGTCCTCAGTCCTGTTAAAACAGAACTCTCACTCTTTTTTTCAG
Seq C2 exon
GTGCCTCCATTGCCCTGATGGACAAAGAAGGACTAACAGCCCTTAGCTGGGCTTGTCTGAAGGGCCATCTCTCAGTAGTACGCTCTCTGGTGGATAACGGGGCTGCTACAGACCATGCAGACAAGAATGGCCGTACCCCACTGGACCTAGCAGCTTTCTACGGTGATGCTGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053580-Tanc2:NM_181071:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.024 A=NA C2=0.084
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF127962=Ank_2=FE(44.1=100)

							
A:
NA

							
C2:
PF127962=Ank_2=PD(43.0=67.8),PF0002325=Ank=PU(48.5=27.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000069312





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000086912, ENSMUSP00000097904, ENSMUSP00000123674
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr17:63406278-63411510 
ALTERNATIVE
HsaINT0163633
(TANC2)
Human
(hg19)
chr17:61483639-61488871 
ALTERNATIVE
HsaINT0163633
(TANC2)
Rat
(rn6)
chr10:94114503-94116976 
ALTERNATIVE
RnoINT0147546
(Tanc2)
Cow
(bosTau6)
chr19:48390885-48396118 
ALTERNATIVE
BtaINT0145024
(TANC2)
Chicken
(galGal4)
chr27:2616104-2619244 
LOW PSI
GgaINT0143989
([1])
Chicken
(galGal3)
chr27:2533456-2536596 
LOW PSI
GgaINT0143989
(TANC2)
Zebrafish
(danRer10)
chr3:22664249-22665981 
ALTERNATIVE
DreINT0160168
(tanc2a)
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
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"