Special

MmuINT0042628 @ mm9

Intron Retention

Gene
ENSMUSG00000028199 | Cryz
Description
crystallin, zeta [Source:MGI Symbol;Acc:MGI:88527]
Coordinates
chr3:154281424-154284552:+
Coord C1 exon
chr3:154281424-154281573
Coord A exon
chr3:154281574-154284444
Coord C2 exon
chr3:154284445-154284552
Length
2871 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
CTTGTTCTTTTACCATGCAGATG
3' ss Score
9.57
Exon sequences
Seq C1 exon
GTTGGATTAGCTACATGCCAGATTGCCAGAGCTCATGGCTTAAAGGTTTTGGGCACAGCTGGTTCTGAGGAAGGAAAAAAGCTTGTTCTGCAAAACGGAGCCCACGAAGTGTTTAATCACAAAGAAGCCAACTATATTGATAAAATCAAG
Seq A exon
GTACACTTTTCTACAGTTTAAGGTCAAACTTTGCTTCTGGGAGACTTACTTGGCTTTAAAATAAGTCATTTTAACAACTGCCTTCTTAACGAGTTAACATGATTTTGCTTAGTAAGTAACATTGTTTCTGTTTTCATATCTATATGTTCTCTCACCCCTATAAATGTTTTAATTGATTTAAAAGGACAGGCATCTAGTTGTCCAGATTTTGCTGCCATGCTTGTAATACACTTGCGAATTAAATGAGACGGAGCCTTTCTAAAGTCAACTGAAAGATCACGTTGTAAGTAAAGCTTGCAGCTACAAGATGCTCATAGTGCAGTTGTTAAGGATGTGAAATTCCCATTGCACTCGAGGTTCCCAGAATTACAAACCAGATGTACCTATCCAGGAAAGATGCCGCTTGCTAATGGGGTCCTTGGGTACGGATTATCACTATTCCACCCACCACAGTGAGGCACATTCAGATAATGTTGCTTACCATACAGTTCACACAGGATCTTATCTGTCTGTCTGGTTTGCCTGGCAAGTGCTCAGCCATTGACTTCTGTCCACTGCTCACCTGAATCCTGAAGTCCTTATTTATATATCACTGATAATGGAATCAGCACTTACTCCCTTGCTCATCCTCAAAAGCACTGTCCTAAGGTAGGACAATGAGAATTTTGCAGGCATGGAGTGCCTTAAGGAGGTCATTATCCAAGGAAGAAGAATGTGTGCATGGGGTTATTTCCACCATACCACCTTGCCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATGCCAGCCAGAGCTCTGACCTGTGCCATGCAGAGAGGAGCTGGCTCCTGGTGCTCAGTGCTGATGTGGTTCTCAGGCGTGTCTGAGCTGAGAGAAGACTGGTTACTGGGGAAAGTTGCTGCTTGTTTCTCCAGCATCTGACTTTAGGCCACGAGGGTGACTCCTTCACTTACCTGCTGGCTTCTGCTTTTTCTTGATCTCAGGAATCTTCCCCACGTCTCTCCACTCCGCTCTCCTCTCCCATCCCCTCATCCCATCTCTTCTTCCCATGCCTAACTTCTAGAAACAGCAGGCTTCACTGCTCCCTTGCCCCCTCTCTCCCTGTGCAGTTCTGCCTGTGTGTACTCTGACATTCACAGTGGCTGCGTCTCTGGTGAGTGGAGAGCTCTTGTGTCCAGGCTGCTCTGTGTCTGTCCTTATCCTAAGGAGCATGAGATCTTGATTGGCTCTCTTGAAACTCTCTGTCTCCCTGCTCACTGGCTTCACTAGTAACCTCCTCTTCTTCACATTATTATACGTTGTGTATCTTTGTGTCTGTGTGTATGTATGCCCTTTGTTGGCTCCATCGCCTGAATTCCATCTCTGTGTCACTAGCCTAGTAGTCCTTGGTACTCACCTGTTACCCTGACAAGAACCCTTATATCATTGTCTATGGCTGTTTTCAAATTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGCATGTGCACTTATGCATGGATGTGTAGAGGGCAAGGGTTCACCTTGATGTCATCCTTTGTCACCCTCCATCTTTTTTCTGAGACAAGGCCTCTCAGTGAACCTGGAACTCACTCCTCCCTGTAGACTGCCTGGCTAGCAGGACCAGATCTCTGCATCTCTGCCCCCAGCTCTGGGATTCCAGCTTCCTCTGTGGTGCTGGATCTGGAGAAGCCTGTGAGCGGGCACTTTACCCTGTGCTGTCTCCGCGTGAGCTTTGCTTATGCCCATTTAAATCAGCTTCTCCTGGCTGCCCTCCAGTCACCCACCCCCATTGCTCTGCCAGTTTCACCCCTTGACAAGGATCTCTCAAGTTCCTGTCCTCTGTTATTTAAGCCTCCGTTCCCTCTGACCTGATGAGTGTTACTGAGCTCAGAGTTGCTCTGTCCACTCTGTTCCTAGAGATACCTGTCCCTTTAAATATTTGTACCAAGAAATAACTGAAATGGAGCTCTGTTCAAAGAGGAATTTTAACTTTCCTGTCTGTTGTTGAGCTTCTAGTACCTAAAACACTGAATTAATGAACACCTGAAAAATAAAACCAAACCAAAACCCAAATACGGAGTTCTTTACCTAACATGTTGTTCTGCATGTTTTGCAGCCTGTAACAGTTTGCATTTTCCTCTTCCTCAATGCTGCGGTGTGAGGAAGCATTCCCCACCTCTCCCACAATGCTGCGGTGTGAGGAAGCATTCCCCAAAGGCCCTTGTGTGTCATTTTTCCTTCATTTTCCTACATCAATTACAGTGCCAGGCTTAAGTACTCATTACTTAGAATGTTATATAAACCTAATGCAAAATAATTATAACATTGCTGGATCTTTAAGAACCAGTTTAAAATGTAGAGAACCAACCCAACAGTGCAGGCAGAAAGGATCAGTATATCAAGCAAATGATAAACCACTTATAACACAACTTGATATGCACACAGGCAGAAATACACACCACACCCACCCACAAATACACATCCACAACCCCCAACCCCCACACAGGTACCCATCCGTACACCACAGATATCCACTCATAGACATGCTCGAGCACACACACACACACACACATGCACATGCACATGCACACCACACACACACACACGCACATGCACACACCACACACATGCACATGCACACACCACACACACACGCGCACACGCGCACACACACACACACTAATCCATACAAATTTGACCTGACCATGGTATCGCACCCAATGTTTCTGAGTTGGTACAGTAGAGAGTGTGACTGGTCACTTTGTAATTAGATTATTTTAAAACATGCACTGTTGGTTCTGATGCGTGCTTAGAGAAGTGGTTTTACCGACTCTCGCCTCCATCTTGTTCTTTTACCATGCAG
Seq C2 exon
ATGTCTGTTGGTGACAAGGACAAGGGGGTTGATGTGATTATTGAGATGCTGGCGAATGAGAACCTTAGCAATGACCTGAAGCTTCTGTCCCACGGAGGACGGGTCGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028199-Cryz:NM_009968:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

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

				
Domain overlap (PFAM):

					





						

							
C1:
PF122423=Eno-Rase_NADH_b=FE(29.3=100)

							
A:
NA

							
C2:
PF0010721=ADH_zinc_N=FE(26.7=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000029850





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000118449, ENSMUSP00000126557
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:74707205-74710097 
LOW PSI
HsaINT0041858
(CRYZ)
Human
(hg19)
chr1:75172889-75175781 
LOW PSI
HsaINT0041858
(CRYZ)
Rat
(rn6)
chr2:260906712-260910175 
LOW PSI
RnoINT0042406
(Cryz)
Cow
(bosTau6)
chr3:70270099-70273627 
LOW PSI
BtaINT0044260
(CRYZ)
Chicken
(galGal4)
chr8:28534856-28535159 
ALTERNATIVE
GgaINT0035731
(CRYZ)
Chicken
(galGal3)
chr8:30436376-30436679 
ALTERNATIVE
GgaINT0035731
(CRYZ)
Zebrafish
(danRer10)
chr2:11326695-11329132 
LOW PSI
DreINT0052435
(cryz)
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"