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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGAGCTTGTTTTTGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctcctgactgttttgaagctcattcacgtgtgtcagatatttgctctgttgtttaagttggttgcctgtgtggtacatggcccagagattgga...

Basic information

species Zea mays
transcript GRMZM2G052630_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052630_T02 (Zea mays), 5'ss of exon 8
lower sequence: GLYMA12G07570.1 (Glycine max), 5'ss of exon 10
ATGTGAGCTTGTTTTTGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctcctgactgttttgaagctcattcacgtgtgtcagatatttgctctgttgtttaagttggttgcctgtgtggtacatggcccagagattgga-
 ||||||||||| |||||||| |||||||| |||  ||| ||||| || ||  ||||||| |||||||||  ||  ||   || ||     |  ||  |        | | ||   | ||||  ||  ||        | |||  |   |||| |      || | 
GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGACGAAAATGTTCTTGGGAAAGAAGGGAAAGgtatttgcttttg-tagtcttctttattgtttgcaaaataatgttcttatttttgttactttggtgccagaattttgtttttagtggcactatttgtgtaa
















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|149073457|gb|EE161762.2|EE161762
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCCAGGCCTTGATCTGGAAAGGCCTTGTATTTA-
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTC-AGGGCTTGATCTGGAAAGGC-TTGTATT-AG
EST: gi|24769404|gb|CA404533.1|CA404533
EST:     ACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: ACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|110190881|gb|EC872779.1|EC872779
EST:     GTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: GTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|76936508|gb|DV174756.1|DV174756
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|31360769|gb|CD445126.1|CD445126
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|60347547|gb|DN214520.1|DN214520
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|149079538|gb|EE168523.2|EE168523
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATG
EST: gi|31354622|gb|CD438979.1|CD438979
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|67030645|gb|CO459394.1|CO459394
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAA-G                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAAGCTTGTATTA
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTA
EST: gi|74240406|gb|DT648320.1|DT648320
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|76936507|gb|DV174755.1|DV174755
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|78105056|gb|DV523474.1|DV523474
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|110525230|gb|EE029414.1|EE029414
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
EST: gi|91057188|gb|EB167606.1|EB167606
EST:     TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAG                         GTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG
genomic: TGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctc ... cttgtggcagGTGTTTATGTCATGATGTCAGGGCTTGATCTGGAAAGGCTTGTATTAGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTGAGCTTGTTTTTGAGAACTGCTTTGTGCCACGCGAGAATGTCCTCGGTGAAGAAGGCAAAGgtattgcctcctgactgttttgaagctcattcacgtgtgtcagatatttgctctgttgtttaagttggttgcctgtgtggtacatggcccagagattgga

- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG