Special

MmuINT0156840 @ mm9

Intron Retention

Gene
ENSMUSG00000035168 | Tanc1
Description
tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1 [Source:MGI Symbol;Acc:MGI:1914110]
Coordinates
chr2:59655542-59658342:+
Coord C1 exon
chr2:59655542-59655727
Coord A exon
chr2:59655728-59658263
Coord C2 exon
chr2:59658264-59658342
Length
2536 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CACCTTGCCACGTCTGACAGGTC
3' ss Score
7.78
Exon sequences
Seq C1 exon
GTGGACCACTTGGATAAGAAGGGCCAGTGTGCACTCGTCCACAGCGCACTGAGGGGCCACAGTGACATTCTCCAGTACCTGCTGAACTGTGAGTGGTCGGCAGGCCCTCCCCAGCCTGGCACCCTGAGGAAGAGCCAAGCCCTGCAGCAGGCACTGACAGCCGCCGCCAGCATGGGCCACAGCTCG
Seq A exon
GTGAGTGGGGCCGTGGGGGTTCCTTCCCGAGACATGAGGCTTTGCGGCCCAGTTGTTTGGTCACAGCCTTCTAAGTTGAGAGCCACAGGCAACAAAAGGGAATGGAGATTTCAGAAAGTTGCTGTTGACCCTGACCAATGGAGTGCTTCTAGTGCTGCTGTCCTGGCTGTGACCAAGGTGGGGGATGAAATGCTCTCCTCAGGAGCCCTGCTGGCTGTTCAGTCTCTCCCGCTCTCACTTCCTCTCCTGTTTGCTCTTCCTTTACCTGGCTCTTCCCTCCCGGTCCCTTCAGTTCCTTCTTTTGTCCCTATATATATAGCCTTTAGACTACAATCACATGGAACCCTAGTTCTGAAATCATTCCTGAGTATTTGAAGGGTTTTTAAAACTCAAGCTTGGGTGTTTTTAGAGCCCGTGAGAATGAATGCTCATTATTTGAAGTTGCTACACCGAAGCAGAGATTCCATGCTCTGTTTCTTCCTGGATGTCACTGCTCTAGGTTTGGAGGTTTAATCATCTTCAGCTGGCCTGGTTCTCTGCCTTGGCTGTGAACATAATAACGTTTGCTCCCATTTTGCGGGTGTTTCCTCACTCTTTGTGATCTTTGAGCAATTGGAGGTGCCAGTGTTTGGAAATATTCTTTCCCCAAAATGACTGAAATTTGAACGCCAAGCTGGCTGGCTGGCACTTGGCACTTACACATGATGGCAGATAAACATATAAGCATGTATCGCTGGCTGGCTAATATTTGGCATGCATAAATGATAGTGCTAAGTACACATATCTGAAAACGCAGACATTTTCCTCTTGTATTTGTCTTAGTTTTTTTTTTAAACAAGACCTCAAATAGTCTAGTCTCTGTAACTCTGGATATTCCTGCTTCTACCTCCCAAGTGCTGGAGTCACAGGCATGGGCCACCATGCTCTCTGTCTTGTTCTCCAGTCTCAATCTGTGGCTTCAACATGAGAACAGTCATCTCTGGGAGGACATGAGCACATGCACACCCACACATGATGCGCGCACGTGCACACACACACACACACACACGATGCACGCCCACACACGGTACACACACACACACGATACACATGATGCATGCCCACACACGGTGCGGTGCACACACACAATACACACACACATACACACACGGTGCACACACACACACATGATACACACACATGGTGCACACCCACACACAGTGCATACCCACACATGATACACACACACACATACACACATACACATACACGGTGCACACCCACACATGATACATACACACACACACGCTCGGTGCACACCCACACATGGTGCACACACACACATGATACACGCATGATGCACACACATACACGGTACACACACACACCCACACATGGTGCACATGCCCTGTGTATGGAATTGATTCTGTTTTTAAGTCCTGTGCCCCACTCAGGAGCTGGCCTGGAGAACACTGAGCAGAGCCTGCCTTGGCACAACCAATAACCAGTTCAAGCAGAAGTGCTAGAGGCTAGGAATTCTAGAATCAAAGTCCCGAAGAGGGTACGATTTCCTATCACCATCAGAGTAAATGCCCAAATGTTCTGCACACACTTAATCAGAAATCTAAAACTGAGATGAGCACAGGTCAGGCTTCTCTCTGAACGCTCCCAGAAGGGCCTTTATGGCTTTGCTAGCTTCTAGAAGCCACTGCCTTCCAGCTAAGGCTGCTTCCTCCATCTTCGAGTCCACAACCTCCCTTGCTGCCCCTCCCTCTTACTCCCTCCTTAGATCCTGATGCCTCCTGTCCAATCCTAAGAATGCTGTGGTTGTGCCAGGTAAGCAGCAGACTGTACACCCACAGAATTGCTCCATTTCAAGGCCTGTGATTTCCTCCTGCTATTTACGGAGCTTGGCGCATCCTCGGATTAGACCCAGTCAGCATACTGTAAACAGTATGGATTGGGAGCCTGGAGAATGGCTTTGTCCCAGTCGCCTGTCACTCGGGATGCTGCAGGCTCTGGTCTAGCGGGTACAGATACTTCAGCTCTCCTGCCTCCAGCTTGGGACCTGCTCTGCTTTTTAACAGGAAGATGCTCAGAAGGGAGAGGAACAGAGCTGTCAGGAGAAAAATCACCTGGACAGTACTGAAAGAAAAATTTCACTGTTAAAAGAAAATCGCACCCTGTTTTCTTTCCTTGTGAAGAATGGCCTAATGGTGACTTATGCAGAAACTGCACTTTATGTGATCTGCTGGGTCCTTTGTTGATTACATTGGCATATTTGGGTCATGTTGGAATTCATTAGAATTCTGAGTACCTGCTAATCCTGAACAGAGTTGCTGCAATTCCCTGAGATTGTTGTATTTTTTAATTCTCCCCAGTGAAAGTGTGAATGGCATACGAATTATGCCGGGAAATGGCTTTCATTATGTTTTCTTCACTTGCACAGCACAAGATAATAATGGTTAAAAAACAACACTCTTTCCTTTGATCTATGGGCTATAATAAGCACCCATTGCTCCGAGAGCTCATTAAATCACCTTGCCACGTCTGACAG
Seq C2 exon
GTCGTCCAGTCCTTGCTGGGAATGGCAGAGGAACATGAAATCGAAGTCAACGGCACCGACACGTTGTGGGGAGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035168-Tanc1:NM_198294:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.065 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF127962=Ank_2=PD(39.4=59.7),PF136371=Ank_4=PU(21.1=19.4)

							
A:
NA

							
C2:
PF136371=Ank_4=FE(45.6=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000036003





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000108187, ENSMUSP00000123345
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:159196794-159198974 
ALTERNATIVE
HsaINT0163609
(TANC1)
Human
(hg19)
chr2:160053305-160055485 
ALTERNATIVE
HsaINT0163609
(TANC1)
Rat
(rn6)
chr3:45889933-45891854 
ALTERNATIVE
RnoINT0147517
(Tanc1)
Cow
(bosTau6)
chr2:37264978-37267393 
LOW PSI
BtaINT0144997
(TANC1)
Chicken
(galGal4)
chr7:36015396-36016194 
ALTERNATIVE
GgaINT0046915
(TANC1)
Chicken
(galGal3)
chr7:38151732-38152530 
LOW PSI
GgaINT0046915
(TANC1)
Zebrafish
(danRer10)
chr6:11822409-11824641 
LOW PSI
DreINT0160138
(tanc1a)
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"