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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaactttcatttttgtctggattccattag

Basic information

species Zea mays
transcript GRMZM2G097502_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 5'ss of exon 4
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaactttcatttttgtctggattccattag
||||||||||||| | ||  ||| ||| |||||||| |||||||| ||||||||| ||||||||||||| | ||||||||||||||||||||||| ||||||   ||||     |||| |||| |  | | ||||| |||| |  ||||| ||   ||||||| | ||||  | |||
GGAAGAGTTAGAAATCTTTTCAAAAGAAGTTGTTCGATTTGGAAATCGTTGCAAGAATCCTCAATGGCACAGCTTGGACCGCTACTTTGAAAAgtgcagtttgatttctgc---cttgtatttaatgaag-gtttattttaaggcactaatttat-tttttgtattgattatactag

upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G00670.1 (Glycine max), 5'ss of exon 3
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagt---tt------------ttcttctcagtacttgaatttgagaatgtgtttactttaggttacta-actttcatttttgtctggattccattag---------
||| |||||  |||| ||  |    |||||  |||| |||||||| ||||  ||||||||||| ||||| ||||||||||| |||||||| |||||   |   ||            ||| ||| |||  |    |||            | |||||  |   |   ||||||| |   |    ||  |||           
GGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAAgtaatatgaattgtactcactcaattcatctaagttttcagctttacaggaaaacaaattttagcctttcatgttttcattctgacccatcttttattgtaaattttag

upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgta----cagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaactttcatttttgtctggattccattag------------------------------------------------
 ||||||||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| |||||     ||||   ||| | | |  ||| ||||     |   | || | ||| | | |   ||| || ||    |  |||   ||                                                  
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttt--tagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag

upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA10G36210.1 (Glycine max), 5'ss of exon 6
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgta----cagtttttcttctcagtacttgaatttg--agaatgtgtttactttaggttactaactttcatttttgtctggattccattag--------------------------------------------
 ||||| ||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| |||||     ||||    |  |     |||| ||||   ||||   || ||  | || | |       | || ||| |     |  |||                                               
AGAAGAATTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaattgatttaatcttgtattttttagaactagtctagatcagttgatctttccttatattttttcttgtaacatctaacattgtgttagttatggttttctttgtctttgttgatgtttag

upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G33040.1 (Glycine max), 5'ss of exon 3
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgta---cagttt------------ttcttctcagtacttgaatttgagaatgtgtttactttaggttacta-actttcatttttgtctggattccattag---------
||| |||||  |||| ||  |    |||||  |||| |||||||| ||||  ||||||||||| ||||| ||||||||||| |||||||| |||||    |  ||            ||| ||| |||  ||    ||  |         | |||||  |   | | ||||||| |   |    ||  |||           
GGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAAgtaatataaattgtactcactcaattcatctaagtttttagcctttcgggaaaacaaattttagcctttcatattttcattctgacccatcttttattgtaaattttag

upper sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaa--------ctttcat----ttttgt-ctggattccattag-----
||||||  |  || | ||  |  |||| || || || ||||| || || || || |||||||| ||||| ||||||||||| |||||||| |||||    |  | || ||  |   | | ||      | ||| |  |||| |  |  ||         | ||||    |||||| |||  ||| || |      
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatct-tgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggttctcatgttcttttgtgctgtcttctatgattttag

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|78090767|gb|DV519141.1|DV519141
EST:     CAATGGCATAACTTGGACCGCTACTTTGAAAA                         ACTGGCATCTGAACGAACCCCACAAAGTTATCTGAAAGAAAAGGCAGAATC
genomic: CAATGGCATAACTTGGACCGCTACTTTGAAAAgtacagtttt ... attccattagACTGGCATCTGAACGAACCCCACAAAGTTATCTGAAAGAAAAGGCAGAATC