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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcatattctttcatttttattgcgatttacatttgtgtgaaggatctccacaaatatttatgtagaaggagtgttctacagAAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACATGTCCTGGAATCAGGATCAATTGATACGGTTGGCACCGTTG

Basic information

species Zea mays
transcript GRMZM2G130034_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130034_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os12g40550.1 (Oryza sativa), 3'ss of exon 7
gttagcatattctttcatt-tttat---tgcgatttacatttgtgtgaaggatctccac-aaatatttatgtag---aaggagtgttctacagAAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACATGTCCTGGAATCAGGATCAATTGATACGGTTGGCACCGTTG
|||||||| | | |||||| || ||   || | ||||||||  | |||| | || |||| | |||||||  | |   ||| |   || ||||||||||||||||||||||| |||||||| || ||||||||||| |||||||| ||  |||||||||||||||||||||| ||||| || ||||
gttagcatttccattcattcttcatccatgtggtttacattattttgaaaggtccccaccacatatttacatgggtaaagaaactttttacagAAATGATGCTGGACTGGCGGCAGCTGAGTTGGCATTAGCAGTTGAGAAACACGTTTTGGAATCAGGATCAATTGATACTGTTGGGACAGTTG

upper sequence: GRMZM2G130034_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------gttagcatattctttcatttttattgcgatttacatttgtgtgaaggatctcc-acaaatatttatgtagaaggagtgttctacagAAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACATGTCCTGGAATCAGGATCAATTGATACGGTTGGCACCGTTG
                       ||      | | ||  | |||  ||    ||||   |  ||   | |||||   ||   ||| | | |    ||||       |||||||||||| ||| ||||||| || || |||||| |||| || |||||||||||  | ||||| ||||| |||||||| ||||| || || |
tagctgtcaaaatttgaagccttgtggaagcaattttataatttagttat--tttattgtgctgaacaagatcttttactgttatatgtatgattggag-------cagAAATGATGCAGGATTGGCAGCTGCAGAGTTAGCACTAGCTGTTGAGAAACATGTGTTAGAATCTGGATCTATTGATACTGTTGGTACTGTGG
















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|148941174|gb|EC886056.2|EC886056
EST:     ACTTTGAAGGGAATGGCGGTCATGCTGGAGCAGTGCTGATGCCCTGCA-G                         AAATGATGCTGGACTG
genomic: ACTTTGAAGGGAATGGCGGTCATGCTGGAGCAGTGCTGATGCC-TGCAAGgttagcatat ... tgttctacagAAATGATGCTGGACTG
EST: gi|31359313|gb|CD443670.1|CD443670
EST:     GACTTTGAAGGGAATGGCGGTCATGCTGGAGCAGTGCTGATGCCTGCAAG                         AAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACA
genomic: GACTTTGAAGGGAATGGCGGTCATGCTGGAGCAGTGCTGATGCCTGCAAGgttagcatat ... tgttctacagAAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACA
EST: gi|148940595|gb|EC885401.2|EC885401
EST:     ACTTTGAAGGGAAATGGCG-TCATGCTGGAGCAGTGCTGATGCCTGCAAG                         AAATGATGCTGGACTG
genomic: ACTTTGAAGGGAA-TGGCGGTCATGCTGGAGCAGTGCTGATGCCTGCAAGgttagcatat ... tgttctacagAAATGATGCTGGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacatttgtgtgaaggatctccacaaatatttatgtagaaggagtgttctacagAAATGATGCTGGACTGGCAGCAGCTGAATTAGCATTAGCAGTCGAGAAACATGTCCTGGAATCAGGATCAATTGATACGGTTGGCACCGTTG
                         aaatatttatgtagaa  TA-rich tract