Special

MmuINT0097944 @ mm9

Intron Retention

Gene
ENSMUSG00000041921 | Metap1d
Description
methionyl aminopeptidase type 1D (mitochondrial) [Source:MGI Symbol;Acc:MGI:1913809]
Coordinates
chr2:71344842-71347947:+
Coord C1 exon
chr2:71344842-71344999
Coord A exon
chr2:71345000-71347797
Coord C2 exon
chr2:71347798-71347947
Length
2798 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TTTAATCCCCTTTCCTCAAGCGC
3' ss Score
5.34
Exon sequences
Seq C1 exon
GTTGTCAGAGAATTCTGTCTTCGCCACTCAATCATATCTACTTACACAAGCGGTCAGGCAGTCAACAAAGAAGACATTTCTTTTTCTGGAGACAAAGGGATATCTCCCACAGTGTGGTTTCACCGGCTGCCGTCTCTCCCGCACATCCTGTCCCCAAG
Seq A exon
GTACTGTCCTGCTGCAGGCTGCTGCAGGCTGCCACTCTGACTAGCAAGCACAGGTGGACTGTGCAAGCACATTTGAATCACGAATTTAAGACGTGTTTTTTTTATTATTATTATTTCAAATTGTGACGGGAGACATTTTATTTTAGCATACTGTAGTTTGAGAATATCAATTAAGGCAAAAATGAGGTCTGGGAAAACAACTGCTTAGCTTATTTAGAACTTCAACTTTTGATCATTACATTTTTTATGTTAGACTTCTAGCATGAAATTAAAACTATGTGTATATAGTTCACAATTTTTGTTTTGAAAAATGACTGTAAAATTGGGTTGATTTAAGAGAGATTCGTAGAAACTAACACTGAATGTTTTTAAGTCCTTACATTTCTATGTTACTATGTTCTTTGAATAATTTTTTTAGAATATATTAAACAAAAGCTAGAACATTCTTGATCCCCTTCAAAGGTTTCAGTATTGTGGGAGTACAATCTCTCTGTCTTTGAAAATGCAAGGCAAAGGAGGGGGAAGGGATCGTTTATGAGGGAGAAAAATCATAAAAGAAATATAGACTTGCCATGAAAATCACCTGCTTTCTTCCTTTTCCACTTTTATAATGAGTCACTCTGAGTGTTCTTCCCAAAGTGGAGCAGTTCATTTTTGTAAAGGGTTGAGAGACAAAAGAAGCCCAAAGTCCTAGCTTGGCTTAGGTCTGACCATCATAGAAAGAGCCAGCATTTGGTATTAGTCATAATGACACTTTCAACATATTGACACTTTTTTTTTGTAAAACCAAAAAGAAATCTGTAGGGCTTGGCCTGGGGATTCGTCTTGGACAGTAAAGCACTTGCTCTGTAAACATGAGGTCCTGCATTCACCCCCAGGGTGCATGTAAAACAACAGCAACCACAAAGCCCAGGACTGTAACGTGCTTGTAATCCCAGAGCTGGGCAGGGGAGTCAGGGACAGATAGATCCCTAAGGGCCCTTGGCCAGACAGTCTGGTCAAATCAGTAAGCTCCAGATTCAGTGAGAGACCCTGTCTCAAAAAATAAGGTGGAGAATAATTAAGGAAGACATCAGATATTGTCTGGTGGTCTCTACACCTCTACACATATGAATACATATTTGATTCCGTACCTACACACACACACACACGTAGGTAAAGGAAGTGTGTTGTGTTTTGCATTTTAGTCAGTTTCAGAGACAACCGAGCACCTCCGCAGCCCATGGTTGTAACCAAAGCTGAGCCCAGAGCAGCAGTGAGAACATAGGCTTGCTGGGAGGAGGCTTGTGACCCATGGGAGCTGCTGGGTGACCACAGGTGACTGTAGCCCCTGCAGGGCTCAGCTGGGGCAAGCCAGGCCATTCTAGCCCCAGAATAAGAAAAGCCCCTCCACGGATGTAGAAATGGCTTATTCAGTAAGTGTTTGCTACACCAGCGTTAAGAGCCGGAGCTCAGATCCCCAGTGCCCACATAGACCCTAGTGGTGTATGCTTCTAATTCTAGTGCTGAGAATGGGGAGGGGGTACAGGAGGATCCATGGAGCTGTTGGCTAGGTGTGAACTCCAGGTTCAGTGAGAGACCTAGTCTCAAAAACAAACGAGCTGGGCATGGGTCCCAGTACTTGTGAGGCAGAGGCGGGCAAATCTCTGAGTTTGAAGCCAACCTGGTCTACAGAGCAAGTTCTAGGACTACCAGGGCTACAGAGAGAAACCCTGTCTCAACAAACAAACAAACAAACAAACAAAGCAAACAAAGCAAACAAAGCAAACAAAAAAGCCAAATAAGTGGGTGGAGAAAATCCCTTCTGATAGGTGGAGTAAGAGGAGATCGTAAGGTCTGGTCTGGCACACTTCATAAACACAAGAGCCCCAACCTCAGCCCTGCAGGACCAAGTATGGCTCCTGGCCCAACTGTGGCCTTACTGTGCTATGGTCAGCAGTATTGCTACGAACGGCTCAGGAAGGGCTGCAGACCTTAGTGTAGACAGGAGCTGTGTATAAGAGTGTCACCTTCCAAAAGCCACCAGCGGGTTTCAGTGCAGAAGAACCAGCCACAGGAGAGATCGGGTTGGATGTGTGATGTTGGGTTAGGAGAAGACTCTTTGTTGCTTCTTGATTAAAGTTGGCTCAGCGGGTAAGAGCACAGACTGCTCTTCCAGAGGTCCCGAGTTCAATTCCCAGGAACCACATGATGGCTCACAACCATCTGTACAGCTACAGTGTACTCATATACATAAAATAAATAAATAAAATTTAGAAAGATGGAAACATTCTAGGTGATTTTATTGCCCTAGGAGAAGACATCAAAAAAGACAAACTGTTTTGTTTTGACCTCTGACGCTCAGTTGTCATGTTACTTATTGGCAGAGGGTGTTGAGAGCTTTCCCTTGCATACATTTTATTATGGTATGAAGGAGATGAGAGTGCTTCTTAAGTCGACATTGTGTAGAACTTGGCGCCTTTTCATCCGCGGGCCATGCTCCTAACGGGCTCGTGCAGAGTGAAGAACAGAAAACTGCTATTTGTTTTGACCAGAAATCTGCCTCAGCCGAACCCGACTGACTCAAAGCCTGGTGAGGTTAACAGACCATCCAGAGCAGCGCTACCAGGCCATGTTAAGTTCAAAAGGGCAAGAGAAGGAACCGGGGGTAGCCTGGAGGGGCTGTTGTGCTGGCTTTGGAGGTCGGTGCTTCGGCAGGAAGGGCAGGACTCCATGAAGTGGGAGGCTGTGTCTGAAAAAAATGATGCCATTGTCGCGTGCTGGGTTCTGATCTCCGTTTTTAATCCCCTTTCCTCAAG
Seq C2 exon
CGCATAAAGAAGCCAGACTACGTGACGACAGGCATTGTGCCGGACTGGGGAGACAGCATAGAAGTGAAGGATGAAGATCAGATTCAAGGGCTTCGTGAGGCTTGTCGGCTGGCGAGACACGTCCTCCTCCTGGCTGGGAAGAGTTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041921-Metap1d:NM_025633:2
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:
NO

							
A:
NA

							
C2:
PF0055719=Peptidase_M24=PU(13.3=42.0)

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000048190f4301A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000048190, ENSMUSP00000048190f4300A, ENSMUSP00000048190f5860A
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr2:172061656-172063710 
ALTERNATIVE
HsaINT0102101
(METAP1D)
Human
(hg19)
chr2:172926384-172928438 
ALTERNATIVE
HsaINT0102101
Rat
(rn6)
chr3:58138581-58141408 
LOW PSI
RnoINT0091640
(Metap1d)
Cow
(bosTau6)
chr2:24527739-24529731 
LOW PSI
BtaINT0088997
(MAP1D)
Chicken
(galGal4)
chr7:17358950-17361342 
ALTERNATIVE
GgaINT0047905
(METAP1D)
Chicken
(galGal3)
chr7:19265090-19267482 
ALTERNATIVE
GgaINT0047905
(F1P5C7_CHICK)
Zebrafish
(danRer10)
chr1:30152093-30152169 
LOW PSI
DreINT0095294
(metap1d)
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"