Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAGTTCAACAGGATATTATGCATTCTGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctggattttatcttcaattctgtatgattgatgcttttgagttgcatccacaaatccaattcgctccaaaagcaaagtttctgaacaaaaatc...

Basic information

species Zea mays
transcript GRMZM2G152757_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152757_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G26250.1 (Glycine max), 5'ss of exon 2
ACAGTTCAACAGGATATTATGCATTCTGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctggattttatcttcaattctgtatgat-tgatgcttttgagttgcatccacaaatccaattcgctccaaaagcaaagtttctgaacaaaaatc----------
| ||||||  ||| | || |||| || |  || ||  | ||| |||||||||||||||||||||||||||||||||||      ||  || | | ||||| |   |   || | ||  |||   |    || ||    |    |  | ||  |   |||  |||| |  ||    |           
AAAGTTCAGAAGGCTCTTCTGCAATCCGATGTGCACTCAAAGTCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgt------tgagttatcttttcaaatacttgccatgttatattttgatgaataatgcagggtt----tctgatctgatcacaacatttccgg-catgtttttagtttatta

upper sequence: GRMZM2G152757_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G09180.1 (Glycine max), 5'ss of exon 2
ACAGTTCAACAGGATATTATGCATTCTGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctggattttatcttcaattctgta-tgattgatgcttt-tgagttgcatccacaaatccaattcgctccaaaagcaaagtttctgaacaaaaatc
| ||| ||  ||| | || |||| || |  || ||  | ||| |||||||||||||||||||||||||||||||||||  ||  |  || ||||    |      || || |||||  | | |  ||   |      |||    ||  || ||| |||  |  ||   ||   || | 
AAAGTACAGAAGGCTCTTCTGCAATCCGATGTGCACTCAAAGTCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgttagtttt--atcttattcctatgcgcatagtgtttgattatatatatgtgttaatgttgaataattttttctgcaatagctcacattgacaagctaattg

upper sequence: GRMZM2G152757_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G26250.2 (Glycine max), 5'ss of exon 2
ACAGTTCAACAGGATATTATGCATTCTGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctggattttatcttcaattctgtatgat-tgatgcttttgagttgcatccacaaatccaattcgctccaaaagcaaagtttctgaacaaaaatc----------
          ||| | || |||| || |  || ||  | ||| |||||||||||||||||||||||||||||||||||      ||  || | | ||||| |   |   || | ||  |||   |    || ||    |    |  | ||  |   |||  |||| |  ||    |           
---------AAGGCTCTTCTGCAATCCGATGTGCACTCAAAGTCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgt------tgagttatcttttcaaatacttgccatgttatattttgatgaataatgcagggtt----tctgatctgatcacaacatttccgg-catgtttttagtttatta

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15208795|gb|BI430679.1|BI430679
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211084814|gb|FL392700.1|FL392700
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|91048113|gb|EB158531.1|EB158531
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTNAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211027069|gb|FL381517.1|FL381517
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211140497|gb|FL400397.1|FL400397
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|91052007|gb|EB162425.1|EB162425
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211426998|gb|FL426768.1|FL426768
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|71435796|gb|DR816846.1|DR816846
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|67013898|gb|CO442647.1|CO442647
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|9731384|gb|BE510136.1|BE510136
EST:     GGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: GGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211225357|gb|FL370946.1|FL370946
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|50326445|gb|CO521571.1|CO521571
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|149037768|gb|EE155430.2|EE155430
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTTACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|93012264|gb|EB637784.1|EB637784
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211337258|gb|FK972906.1|FK972906
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTTACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTTCCTTAAAGATGGATGTATCATCTGGA
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTT-CCTTAAAGATGGATGTATCATCTGGA
EST: gi|211131362|gb|FL428332.1|FL428332
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211217102|gb|FL383485.1|FL383485
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
EST: gi|211337263|gb|FK972911.1|FK972911
EST:     TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTTACAGTGGCTGATTATG                         GATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC
genomic: TGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctg ... cacacattagGATCTCAAATATTGGTCGGTTTTTCCTTAAAGATGGATGTATCATCTGGAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAGTTCAACAGGATATTATGCATTCTGGCGTTCAGGCTAAGGCAGACAAAAGTCCTGTCACAGTGGCTGATTATGgtacgtgctggattttatcttcaattctgtatgattgatgcttttgagttgcatccacaaatccaattcgctccaaaagcaaagtttctgaacaaaaatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT