Special

MmuINT0042627 @ mm9

Intron Retention

Gene
ENSMUSG00000028199 | Cryz
Description
crystallin, zeta [Source:MGI Symbol;Acc:MGI:88527]
Coordinates
chr3:154276786-154281573:+
Coord C1 exon
chr3:154276786-154276837
Coord A exon
chr3:154276838-154281423
Coord C2 exon
chr3:154281424-154281573
Length
4586 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
GGTTATGTTTTGTCTTTCAGGTT
3' ss Score
11.19
Exon sequences
Seq C1 exon
TGCCCGTGCTCGAGCTGGCGAAAGCGTTTTGGTTCATGGGGCCAGTGGAGGA
Seq A exon
GTGAGTATCTATTCAAGTTTGTATTCAAGCGAGCATGGAGTTATGGGTCTCACGTGATAGTTCTTGAAATCTCTGCACCATTTAAGTTTTCAGTTTTAAAAATTTATTCTCCAAGGACTTCATTCATGCACTCTGTGTGACTGATCTTATCTCCCAGTATGCCCTTCCCAACTTCATGCTCTATTCTTCTTCTTTTAAAATAACCCACTGTGTCTACAAGTCAGTAGTACCCAGGTGAGAATCTGCTGCAGGAGCTCAGGGTGCTCTTCCACCCCGAGCAGCCAGCAGCAGCTCCTCCCTGGGGCAAGGCCTTGGGAGCCTGTCACCTGGCCATGCTGGGCTTCTGACATCGTACATGATGAAGTCATTTTGAAGAGCTGTACCCACCCCACCCCTAGCCCCCTTAATGCCACGAGGCTTTAAGATGTAGCTGCTAAGTAGAATCCGTGGCTGATGCATTTCTTACTTAATAAATTCAGCAGACCACCTCATAAAACAATTAATGTGGTAGGTTTTCCACCTGTGCTGGGAGTGCACCAAGACTGGCCTTGCCTCTGCCTTCACGTGGCATAGTTCTTAGAATTATGCGGCCTTTTAAGCTGTCCTAAACATTAACAGTAGTTGTTCCGTATTCCTTTAGGTAGCAAAATAAGGCTCATTAAACCTCCCATCCAGTGAGTGGTCAGCTTTCCTCCTATCCGGGTTCCCTGTTGTGCCAGCAGGCTCATACTTTTATGGTAACCAAAGGGTGCACAGTATATAGCTGTGTCCTCAACACCACAACCCAAGGCTGAAAGTGTCACTAGTTGGGGAAAGGACTGAGAACTCAGCACCTAAGCGCTCTAAGGAGTCCCCAGGCATAGCATTGTCAGACTGCTCAAGCTCCTCACTGCTGCTCATTCTCCAGGGAGCATGGAGGAGAAGCCAGAGTTGTGCATTTGGAATTCACTAAGCCAGCACAGAGAGACACTGCAAATGTCGGAGACAAAACCAAGGGCCTGCGGGGCGATGGCTCACCTCCAGGGAGCTGGGTGTTCTAGGGACCACATGGAAAGGAGTAACTCATTACCCAGCATGCCCCACATAACGATGATAGCGTCCTGACAGTATGGCTCTACAGTGGCCAGGTAACTCAGAAAGTCAGGCTGCCGTGTGTCTCTATAGAGATGAGCTTCCTTATGGCACATCTGGCTTCCTCAGCGACTCGGAGATCAATCTGCAGGGATTTCACATGTCAGACTATTTACCAAGAAAGCCCAAAGTTGTCTCTGTAGGGCTTGAAAAGACAGCTAAACTCATTGTTAACCATCTCCAAAGGCTGGTTTTGGATGAGTTCAATTTAATCTAATAACCGAAGGTTTGAAACACACGTGTTTATTTAAATGGCTATGGTTGTCTAAGAGCCTTGTGCTCTGTAGAGAAGAGAGATGTTCGTACAGTGGAGAGAGAGGGTTTAGAGGAAATCCCTTTACACTCCTGAAGAAAGCCCTGCCACTTCAAAGGGATTGGTTTGCTTTTTTAAAAGGTAAAATCCAAACTGCTGGGTTTTGGAGCTGGCTGAGTCTGCTAAATCCTGGCTGGCCGGGACAGGCTGGCGGCCCATGTGTGGATCGCCTCTGATCCTCCTGCCCTATCAGAGGGAGACAGAACACTGGCTTTTGCCTGGCTTCTGTGTGTGCTTTCCGTCCTCACTTAATCCACATTCTTGCTGGATTATGTTGTGGGTTTAAAATGGCGTGGATTTGCGAACACAGCCATTGTCCCAGTACATTGGTGGGAGAGTCTCATTTTAGTGTTCTTGAAATAGATTGGAGAGAAATAACTGGCAGAAAATGCCATGCAATCTCTTGAAAAAATATTGTGAATCTAATTGTTGGCAAGAAAACAGCAGCCAGAGCCCTTTAGAAAACTGAGAGACTTTGCTCAAAGAGAGCTTTAGGTGAGATGTTTGCGTTAGGTCTGCACCTTAGAATGTGATTTTATTAGCATCATAGTTTTAATAGAAAGGTTAAGTTTTGGGGGTCAATTGCAGTGACCCCACAGTACAGTGCTCCTCCTGATGGGCTGGCTGTATCCTTCCTTACATAGGGTCCTGCATACTTGCTTTGGTTAGATTATAGAAAGCCTGGCAGAGCCTCATCCACTGCATGGGCCTTCAGTCCATGGGTTGCTTCAGCCCAGGAGGGGCAGGGCTGTCGCTATCCAGTGGGTTTCTCGTATTTCCCACTGTAATTATTTCTCCTGCTTTACCCAATTCTATTGGCCTTCCAGATCATAGTTGCTTGACTTTTTATCTTGAGTTTTTACATTTACTTTGTGAGTCTGTGCAAGCTTGTGCTGATCAGAGGACAGTTTGCCTGACTCGTGCTGATCAGAGGGCAGTTTGCCTGACTTGTGCTGATCAGAGGGCAGTTTGCCTGACTTGGTTCCCTGCCTCTACCAGATGGTTGCTGACTTTTGGCTTGGTGGAAAGTAGCCCAGCCTACGACCCTGTCAGTTAATGCTCTGTGTGAACTGCGCTGGGTTAGATTATTCAGGTTTAAAAGGATGGTCTGGTATGAGAGGAGACATGCTCAAAGTTGGCCTCTGGCCTCTACATGTACACTGGGCACATATGGCAGCATGCACGTGCACACGCGCACGCACACACACACAGAATCCTTGATTTTTAAAAACTACTAGTGAATTGCTGCCTTGAGTTTCATTGAAAAATAATGCACTAAATTTTGGCTAAAGAGTAAAATAGAATTTTCAACAATTTCTGAAGTAGGCCCAAACACGTCTGCCACTTCAACATTTATATAATTTGATAAATATTACCCTTGATGCTCATAAAGTCAGAGTAATGGGTCAGACTCTGAGACTGCTGATTCATATGTATGTTTCATGTGTCTATAATACCTAATATACAAAATCCAGATAAACAGTGGTCTGGTAGAAAGCGTTGAAGAAGTCCTGGTCTGCATTTGAAACTGATACGTAACAGGAAATAACAGCCAATCATGGCAGCTCATGGTGAGAACCCAGCACTGGCAGGGACTAAGGCACCAGGAGTTCAGGCCAGCCTGGACTACATACTGAGCTTGCAGGGACTAAGGCACCATGAGTTCAGGCCAGCCTGGGCTACATACTGAGCTTGCAGGGACTAAGGCACCATGAGTTCAGGCCAGCCTGGGCTACATACTGAGCTTCTCAAAAGAAAAAGAAGTACCTGAGTATTTATTTCCTTTTCAAGAAGTCAGTGCTTTTCTAAATGTGACTCTGAATAAAACTGGGGATAGAAAAAACTTAATACAAACCGCTGTTGGGAAGGGTTTTGTTTCCAATGAAGAAAGAGGGTAAATAGCTGAAGTTACAAACTCCATGCCCTGCTCTGGGCCAGCAGTTGTCTACAGGGTCGTTTCACACCATCCTGACTTCCTGGCTGTATATTTGTCAGGTCTATCAGGGTCTTTGCCTGATTCCAGAGTCTAAAGCTGCTGCCACTCCTTGAGAGCTTAGGCTCTCCGCACCACCATGGCTCTCAGTGTTGTCCAGGGCCTCTACCTTGCCGTGGACCTTGGCCGTCAGTCTCCACTGGGCGGTGAGCTTGGTTCCTGAGACACACCATCCTTCTTTCTGCCTTTTGAGCACCCCGAGCGTGTTCCCACTCTACCCTTCCCTTTACCACCTGCACCCTCGGGACAGGGATTGCCTGGATCCCCCTCCCCCCACCCCCTTTCTCCTCATTTTCTCCAGGTCACCTTTCCTGATGGCCTAGACAGCCCCTCTCCACAGCTCTAACCCTGGGTGGTTTTCTTATTTCCCCAGTGCTTTCTGTTGACTTCACTCACTTGTTAACTCACATCACCTGTTTTCTCTTTGGAATGTAATTTTTTTTTTTTTACATTAAGTCCATGGGCAGAGCCTATATCTCTAACTTACACAATAGAGGCCCTATGCTTGTTATAAAGAATGTATTATTTAATTGGTTAAATAAAGCCAGGTAGAAGCATCAAGGCAATCTTTAAAGGCTGTACCTCCTGCACAAAGCGTGTATTAGCAGCTGTCCTGCTGCAGTAGTTAGTGGTCATGGGCTGCAGTGTGGCTTGGCCTGCTGCAGTAGTTAGTGGTCATGGGCTGCAGTGTGGCTTGGCCTGCTCTGCTCTGTGAGACTTGCTCAAAGCTGATGTATTTCAGAGCTTACAGCTCCTCGTCGGCATAGCACTGACAGTGATGGAGAACTCAGCAAGCTCTGTGAGGTGTGCTGAGCACGGCATTGGGAGAATGATTCTTTCCTGCAGGAAAGTTCAACACCAGAGCAGCGGTCCTCAGCCTTCCTAATGCTGTGACCCTTTCATACTATGATGACCCCAACCAGAAAATCATTTTCATTGTTACTTTATAATTGTAGCTTTGCTACTGTTATGAATTGTAACATAAATATATGTATGTTTCCTGATGGTCTTAGGTGACTGTTGTAAAGGGACCATGACCCATAGGCTAAGAACCACTGCACTAGTGAGATCCACACTTCCCTGTGGGCACTGGAGGCTTCCAGGGAATGTGGAGACTATGTGATGTCAGGGTTATGTTTTGTCTTTCAG
Seq C2 exon
GTTGGATTAGCTACATGCCAGATTGCCAGAGCTCATGGCTTAAAGGTTTTGGGCACAGCTGGTTCTGAGGAAGGAAAAAAGCTTGTTCTGCAAAACGGAGCCCACGAAGTGTTTAATCACAAAGAAGCCAACTATATTGATAAAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028199-Cryz:NM_009968:5
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(41.5=100)

							
A:
NA

							
C2:
PF122423=Eno-Rase_NADH_b=FE(29.3=100)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000029850





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000118449, ENSMUSP00000121269, ENSMUSP00000126557
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr1:74710248-74714578 
LOW PSI
HsaINT0041857
(CRYZ)
Human
(hg19)
chr1:75175932-75180262 
LOW PSI
HsaINT0041857
(CRYZ)
Rat
(rn6)
chr2:260902312-260906561 
LOW PSI
RnoINT0042405
(Cryz)
Cow
(bosTau6)
chr3:70264182-70269948 
LOW PSI
BtaINT0044259
(CRYZ)
Chicken
(galGal4)
chr8:28535310-28536506 
ALTERNATIVE
GgaINT0035730
(CRYZ)
Chicken
(galGal3)
chr8:30436830-30438026 
ALTERNATIVE
GgaINT0035730
(CRYZ)
Zebrafish
(danRer10)
chr2:11329283-11331754 
LOW PSI
DreINT0052434
(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"