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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaccgttgacatgctgtatactaaatggtgcagtatttttatttcctattcataactagtaaacattttgagtgatgactaacaactcgcatctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATATTTGGGGCAAGTGAAGTCAGCCGGAATGTTGATTTGGGTGATGAGACCA

Basic information

species Zea mays
transcript GRMZM2G060727_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060727_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g55010.1 (Oryza sativa), 3'ss of exon 6
gtaaaccgttgacatgctgtatacta----aatggtg----cagtattttta---tttcctattcataactagtaaacattttgagtgatgactaacaactcgcatctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATATTTGGGGCAAGTGAAGTCAGCCGGAATGTTGATTTGGGTGATGAGACCA
|||| |  ||   ||  | | |   |    | |  ||    ||   | ||||   |||| ||| ||||||||  |||  | ||| || || ||| |    |   |||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||| ||||| ||||| || |||||||||||||||||| | || ||||| ||  
gtaagcattttgaataatctgtgtcacttgagtcatgttaccatcctctttattctttcatatacataactatcaaaattcttgggttataactca----tttgatctcctacagTTATGTTATGCCGCGAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATCTTTGGCGCAAGCGAGGTCAGCCGGAATGTTGATCTTGGCGATGACACGG

upper sequence: GRMZM2G060727_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g07470.1 (Oryza sativa), 3'ss of exon 6
gtaaaccgttgacatgctgtatactaaatggtgcagtatttttatttcctattcataactagtaaacattttgagtgatgactaacaactcgcatctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATATTTGGGGCAAGTGAAGTCAGCCGGAATGTTGATTTGGGTGATGAGACCA
|||| |  | || |  |||| |||  | || |||  |   | | || | ||  || || ||  |    | |||    || || ||  |     |||| ||||||||||| || || || ||||| ||||||||||| ||||||||||||||||| ||||| ||||| || ||||||||||| |||||| |||| || || || |
gtaagcattggataatctgt-tac--actgttgccttgaatct-ttcctta--cagaattaccatggctattggactataacaaatga-----atcttctacagTTATGCTACGCTGCGAAGACTTGGTTTGGTGGATTTGTGGGCATGATGATCTTTGGTGCAAGCGAGGTCAGCCGGAACGTTGATCTGGGCGACGAAACAA

upper sequence: GRMZM2G060727_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G24980.1 (Glycine max), 3'ss of exon 6
gtaaaccgttgacatgctgtatactaaatggtgcagtatttttatttcctattcataactagtaaacattttgagtgatgactaacaa-ctcgcatctccta---cagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATATTTGGGGCAAGTGAAGTCAGCCGGAATGTTGATTTGGGTGATGAGACCA
    |    | | | ||     |||| |    |   ||| |  ||   ||| |   |   | | ||  |  | | |  | |||      | | | | | |      || | |||||||| || || || |||  |||||| ||  ||||||||||||||||||| ||||||||||| ||  | ||||| || |||||||||||||| |
----aaaactaaaaagc-aaggactacaataggggttatatgcat---ctagttgcatagaatgaatttactaattctttactttttctcccccctttaccggactagATGTGTTATGCTGCTAAAACTTGGCATGGTGGCTTCTTGGGCATGATGATATTTGGTGCAAGTGAAGTGAGTAGAAATGTGGACTTGGGTGATGAGACTA

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|76912182|gb|DV164603.1|DV164603
EST:     CCTTCCATCAAGTCTGCTCACATTTCATCCGAACAGTAGCTGGATTCCAG                         TTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATA
genomic: CCTTCCATCAAGTCTGCTCACATTTCATCCGAACAGTAGCTGGATTCCAGgtaaaccgtt ... tctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATA
EST: gi|91052684|gb|EB163102.1|EB163102
EST:     CCTTCCATCAAGTCTGCTCACATTTCATCCGAACAGTAGCTGGATTCCAG                         TTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATA
genomic: CCTTCCATCAAGTCTGCTCACATTTCATCCGAACAGTAGCTGGATTCCAGgtaaaccgtt ... tctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcataactagtaaacattttgagtgatgactaacaactcgcatctcctacagTTATGTTATGCAGCAAAGACATGGTTTGGTGGGTTTGTGGGCATGATGATATTTGGGGCAAGTGAAGTCAGCCGGAATGTTGATTTGGGTGATGAGACCA
                              gactaac  putative branch site (score: 1)
                                           catctcct  putative PPT
             taaacatttt  TA-rich tract