Special

MmuINT0156849 @ mm9

Intron Retention

Gene
ENSMUSG00000035168 | Tanc1
Description
tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 1 [Source:MGI Symbol;Acc:MGI:1914110]
Coordinates
chr2:59680067-59684206:+
Coord C1 exon
chr2:59680067-59680167
Coord A exon
chr2:59680168-59680751
Coord C2 exon
chr2:59680752-59684206
Length
584 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCTTATACTTTCATATGAAGGCA
3' ss Score
5.82
Exon sequences
Seq C1 exon
GACTTTGGTTTGGCAGAAGAATTTGCTTCAAAGGCTCTGGAATTGAAACCCAAATCCTACGAAGCCTTTTATGCCCGGGCGAGAGCAAAAAGGAACAGCAG
Seq A exon
GTACTGTCTGGGGTCACCCACGTGACTACTGGGGCATTTCTCTGGGAGGTCAAACCTGCTAGTTGAGTTTGAGGGTGTTTCCCTTCATCAGAGTTATTACACACTTCTCCTTCCTTTCAATAAAATCCAGTGGCTTCCAAGAGGCACGGCCATGGGCGTTACTTTTAGCGGCTAACGTTCATTTTCTTGACATTCTGGTATCTTGCCCACCGTACCAGAACACCCTCTGAGCTCTTGTCTCATATGAGACAGACAAAGAGGGGTGACAGAGGAGCAGAAGAGTTAGAAAGGGACATGAGGAGGGCCAGAGAGGGCCTCAAGCAGAAACCAGTGCTTAGAGGGACAGGATTCTGGCACCCTCTGCCCTGGTGTCTTTATAGATAGATCAGAGGCCCAGAGTCACCAAGCCCTGGGTTAGAGTACAGCACTGTTCTGTTGGCTCAGCAACTCTGGGCCAACCAGGACTTACCCAGCAAGTCCCTGGACCTCCCCCCTTTCCCTTTGAGGACAGCTAGCTTAAGGACAGTGCACCCAGAGCCTGCTCAGATGTGTCCTCTAATCTTATCTTATACTTTCATATGAAG
Seq C2 exon
GCAGTTCCTGGCAGCTCTGGCTGACCTGCAAGAGGCTGTGAAACTCTGTCCCAACAATCAGGAAATCAAGAGGCTCCTGGCCCGTGTTGAAGAAGAGTGCAAGCAACTCCAGAGGAACCAGCAGCAAAAGCAGCAGGGTCCCCCACCAGCTCCAGCCAATGACTCGGATAATGAGGAGGATGCGCCAGCCTCTAGTTTAAAGGACCACTTCCCCATTGAGGAGGCGGAAGAGGAAGACACCTCTTCACAGGAAGAGTCCATTTCCCCGACTCCCAGATCCCAGCCACCACCGTCTGTCCCTTCCCCATACATCCGCAACCTTCAAGAGGGATTACAGTCCAAAGGCAGGTCAGCATCCCCACAGAGCAGGGCAGGAATCAGCAAGTCCCTGAGAGAGACTGTAGCCCAGTCAGGCTTGGTTATGCAGCCTACCAAACAGGCACAGATAGTGAAGACCAACCAACATCTGGGTTCCGGGCAATCTAGCATGAGAAACAGTAGCACAAAAATACAAGTTTCTTCTCAGAACCCTCCCCCGAGTCCGATGCCGGGTAGAGTATCTGCAGCCCCTGCCGTGAGCAGAAACCAGCATTTAGAGGGAACCGGTCCCTTCACTGCAGGAACTGGTTGTGGCCACTTCGGGGATCGGCTGGGCGCCAGCCAGAGCCTCCAGCTGCAGCGCAGTGAGAGCGGCACTGCGTATCCTCTACCGAGCAAAGTCAAAGCTGCCGAGAGGCTCCTGGCTCATGCCTCCGTGGCCGTGGACATGGCTCCTCCAAACCAGGGCGGACCAGTGAGCTGTAGCGATGTGCGGCACCCGGCTTCCCTCTCTAGCTCAGGCTCCTCTGGCTCTCCATCGAGCAGCATAAAGATGTCAAGTTCCACCAGTAGTTTGACTTCAAGCAGTAGCGTTTCAGACGGATTCAAGGTCCAAGGACCAGACTCTCGGATCAGAGACAAAGGTACAACCCAGGTGCAGGGTGGCACTGCCGAACACAGGCCCCGCAACACTCCATTTATGGGCATCATGGACAAGACCGCCAGGTTCCAGCAGCAAAGCAATCCTCCGAACCGCTCCTGGCACTGCCCGGTGGCAGAGGGGCTACTGACAAACACAGCCACTGCAGCTGGCCTGCAGTCTAACTCTGAGAAACCCACTCTCAAGCCAGGAGGATACTGTAGCCAAGCCAAACCGTGTTCAGTTCCTCCCCTGAGCATGGGTGTCCACAATGGGGCTCAGGTGAAGGAGCTGGAAGAGAACAAGTGCCAAATCCCAGCCCTCTGTCAAGATAACAGGATAACTAAGGGGGTTCCTCATCTCTACCCAGAGGGCGTCTCTAAGCAGCCACTTCATGTCAGTACGGAAGCCCACAGGAGCCACCTCACTTCAGCAAAACCAAAGCGATCGTTCATAGAGTCCAATGTGTGAGCCTTAAGCAACCCCTGTGTAGAATCTGGAGGCAGTCTGTTGGCTCGTGGTAATAAATGATGTCTCTTTTTCTTTTCATAATAAAAATTACATGTTAGCCATATTTTCCACCTCTTGGGTGGATCTGATGCCATTGACATATTAAAACTGTAGGATAAAACTATAATTAGTAGCTAGAAATCAGCCATAAACAGAAGTACTAAACAGCATTGAACACTGTTGTCAGCTTATATCTGGCGATTTAAAGGCTGCCAAGAAGACATCAACTGATGCCGTTCTCTTAGGAGATTATTTGGCTTGCTCTGTGTAAAAGCACACGTACTTAGAGAAGGAAAAAAAAATCCACTGGTAAAAGTTAACTCCTGACATAATATCTGGAAAATTCTGGAAAAGATGGGGAGGGAGGGTGTTTAAGTTACAGATCCCTAAGTCAAACCTGTCCTTACATGTGTGTAAAAATCGCAACCTGAGTGATTTCTAGCTGGATATAAATGTGACTTTTATCTGCAAAATACAAGCGCAGCCAAGTATCTTGTTGGTTCCTCGAGAGGATCAAACACCTACTTCCATGATATGGTGAATTGAAGAGTATTTTTATAGCCCCCTTTTTGGAACTATACTTAGGTTTCACCGTGTTGCTGATAAGACGAGAACAGGCTAGCTAGAATTTGGATTGGTGTCCAGGTCAGAGTTGTGCAAAAGTACCAAGAGAAGCACTCTTAGTGACGGCCACAAATTAGCTCTAACTGGTTCCGAAAGTGTTCTGGACAGTGACGGTCCCCAAAACAAGCCTCTAATGTCCTCTAGGGAAAGTGTTCAGACAGGACCCTTGAGGTCTGGGTGGCAGTTTTGATTTCCTTACACAGCCCGTTGTTTCATAGTCATGTGTCATATATATATATAAATAGCTAGCCCATTTTATTCAGACTTGTAAATAACTCAAAGGAAGTTAATCTAAAGACAAATAACAGAACCCCGCCATCTCTCTGCATGTTCTCTGTACGCTCCATCATGCTGGTTGCCGCACTGAACGATGCGTTATCACGGCTTGTAACAGTATACCCGCAATGGCACTTTATCTCCTGTGTATGGACACCTCTGAGGTGCTACTTAAATCCGAGTGACATATTTTTCACCTGTAAAGATAAGGTACAGGGATGAACCTTGGCTTAAGGTATTTTTATATGAAAATGGTGTTATTGGAAGATGTTCAAATGCTGGTTTGAGAGAGGTGGGAGAAGTATTTTATATGTTGAGATGTGAAATGTATTTTCTAGAATCGGGGAGAAGGAAGTTCTATATTTGCAGAATGTTTTAAACGTGAGTACCCACGATGCTCCTATGAACATCATTAAGGTTTTGTACGAAAAGGAACCTTGCCGCGGCGTCATTTAGTGTGTCTGTTCCTGTGTGCAGAGGGCTTTGTACAAACAGCTAGGCCGTTTTTATAAGCTCTCTCTGAGTTCTGCTCCAGTTACTATGGCTTATTTATTGTTTTCCTTAATATTTGTGACAGTCTTACTCTTTCGTTATGTAGTTTGTTTCTGCACAACTACTGTACTTTTTCCACATGGAATAAAAACCATTACTCCAAGTGGGTTGGCATTCATTGCTCAGCGGGTAAGAAGGCAGGGACACCTCTCGTGGCTCTCTGCCTTGATTTGTCACCCTAAGGAGTAAAAAGCACTTTGAATACACCAACAGCACGGGTTTTATTTTAATTTCAGAATAAGGTGGGAGCTTCTAGAAATTCCAAAGTACTCTAGTCTCATGATTTTTTTTGCCTTAAATAGGAAAAATGCACGGGACGAGCAGTGTGGACTAATGGGTCTCGCTGGTCACAGATACTTGTACCCTGTAACCGCCAGTGCACCGTGCCCTCTCAGGACAGCTGCGTCTTCCAGCACATTTGCAGTGTCTTCTCATTGAAACTGTCTGTCTTTATGACCACAGATTTGTCTCAAACTGTGTAAGAATAGAGATTGTTTTGGTTGTATCATGATAAAATTCTTACTTGAAGTATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035168-Tanc1:NM_198294:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
Alternative protein isoforms





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.866
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF134141=TPR_11=PD(20.0=47.1),PF134281=TPR_14=PU(31.8=41.2)

							
A:
NA

							
C2:
PF134281=TPR_14=PD(65.9=6.1)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000036003





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000097660, ENSMUSP00000108187, ENSMUSP00000123345
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:159228897-159229577 
LOW PSI
HsaINT1043656
(TANC1)
Human
(hg19)
chr2:160085408-160086088 
HsaINT0163599
(TANC1)
Rat
(rn6)
chr3:45914006-45914617 
ALTERNATIVE
RnoINT0147526
(Tanc1)
Cow
(bosTau6)
chr2:37241170-37241779 
ALTERNATIVE
BtaINT0145006
(TANC1)
Chicken
(galGal4)
chr27:2627178-2627376 
Chicken
(galGal3)
chr7:38164090-38164887 
GgaINT0046923
(TANC1)
Zebrafish
(danRer10)
chr6:11803270-11806109 
LOW PSI
DreINT0160147
(tanc1a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
TACGAAGCCTTTTATGCCCGG

				
R: 
TGTATGGGGAAGGGACAGACG

				
Band lengths: 
355-939

			

		

	





	
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"