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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttgctgcactttatattcatcttgaaagttttgtttgttgaatctatatttgttcgagcatatcttatcatggatttcctacatttgtag

Basic information

species Zea mays
transcript GRMZM2G029307_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029307_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g01660.1 (Oryza sativa), 5'ss of exon 3
GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttgctgcactttatattc-atcttgaaagttttgtttgttgaatctatatttgttcgagcatatcttat-catggatttcctacatttgtag------
 |||||||| || | ||| || ||||||||||| ||  |||||||||||||||||||||| ||||||||||||||||| ||||| ||||||||||||||||| ||  |   ||||  ||   ||||        |   | || | |   |  |   |   || | | | |  | |  |  |  | ||  | |||      
AAATCATGCAATTGCTCTCCCAGAAAGAGTTAACCCTACAAGTTTGAGTTTGATTCTTGACTATTGTCGGTTTCATCAAGTCCCAGGGCGCTCAAACAAGgtatgtcgtgatttaagttttgtcttctggcaactccctttttactgctttctctcttctgcttgtttcaggcgtccacctgttgcaagtatagaccatt

upper sequence: GRMZM2G029307_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA09G39480.1 (Glycine max), 5'ss of exon 3
GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtt-tgctgc--actttatattcatcttgaaagttttgtttgttgaatctatatttgttcgagcatatcttatcatggatttcctacatttgtag-----------------------------
||||  ||| |||  ||| ||  || |||| | ||| || |  ||||| || ||||||||||||||||  |||||||| || || || ||||||||||||||| | || |    ||||  |   |||| || ||||  |   |||    ||| ||| | | || |||  ||||    ||    | |  |    |                              
GAATTGTGCAATATGTCTTCCTCAACGAGTCAGTCCTGCGACGTTGAGCTTAATTCTTGATTATTGTCATTTTCATCAAGTACCAGGTCGCTCAAACAAGgttctactacctgttttacctctctctttaatgttt-atacattgttgttatctttatacaag-ataatttatggctgaacaacaatgtcaagatgatcttacttgggggttattcttgtatag

upper sequence: GRMZM2G029307_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA03G01090.2 (Glycine max), 5'ss of exon 2
GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttg-ctgcactttatattcatcttgaaagttttgtttgttgaatctatatttgttcgagcatatctt--atcatggatttcctacatttgtag-----------------------
|| |  ||| |||  ||| ||  ||  ||| | ||| || |  ||||| || |||||||| ||||||||||||||||| || || || || |||||||||||||| || |  ||| |          | | | || ||   |  ||   |       ||| |  | | |  |  ||  || |   |  | | |                         
GAGTTGTGCAATATGTCTTCCTCAACAAGTCAGTCCTGCCATGTTGAGCTTAATTCTTGACTATTGTCGGTTTCATCAAGTACCAGGCCGTTCAAACAAGgtttgacttctttttttcaatgctcctacattgttattatcttcatagttgacaagacgatccaagcctgaacaataaatgtgaaaggtatttgacttagggattattctttttatag

upper sequence: GRMZM2G029307_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G07600.1 (Glycine max), 5'ss of exon 3
GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttg-ctgcactttat-attcatcttgaaagttttgtttgttgaatctatatttgttcgagcatatcttatca-tggatttcctacatttgtag-----------------------
||||  ||| |||  ||| ||  ||  ||| | ||| || |  ||||| || ||||| || |||||||| |||||||| || || || ||||||||||||||||| ||||  ||| | | |  ||||| |   ||  | | || |  ||  |   | |    ||   || | || |  || |   |  | | |                         
GAATTGTGCAATATGTCTTCCTCAACAAGTCAGTCCTGCCATGTTGAGCTTAATTCTCGACTATTGTCGTTTTCATCAAGTACCAGGCCGCTCAAACAAGgtttgactgctttttttcaatgctcttgtattgttattattttcatacttgacaagatgatccaagcctgaacaataaatgtgaaaggtatttgacttgtggactattcgttttatag

upper sequence: GRMZM2G029307_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G46780.1 (Glycine max), 5'ss of exon 2
GAATCATGCTATAGTTCTACCGGAAAGAGTTAATCCGGCAAGTTTGAGTTTGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtt-tgctgcac-tttatattcatcttgaaagttttgtttgttgaatctatatttgttcgagcatatcttatcatggatttcctacatttgtag----------------------------------
|| |  ||| |||  ||| ||  || |||| | ||| |  |  ||||| || ||||||||||||||||| |||||||| || || || ||||||||||||||| | || |   |||   |   |||| || ||||| |   |||    ||| ||| | | || |||  ||||    ||    | |  | |||                                    
GAGTTGTGCGATATGTCTTCCTCAACGAGTCAGTCCTGTGACGTTGAGCTTAATTCTTGATTATTGTCGTTTTCATCAAGTACCAGGTCGCTCAAACAAGgttctactacctgtttgcctctctctttaatgtttt-tacattgttattatctttatacaag-ataatttatggctgaacaacaatgtatgtcaagatgatcttacttgggggttattctttgtatag

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|211128008|gb|FL128205.1|FL128205
EST:     CGGTTTCATCAGGTCCCTGGGCGCTCAAACAAG                         GAGCGGAAGTCATTCGATGAAAAGTTTGTCAGGATAGACACAGAAAAACTG
genomic: CGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttgctgca ... acatttgtagGAGCGGAAGTCATTCGATGAAAAGTTTGTCAGGATAGACACAGAAAAACTG
EST: gi|32935922|gb|CF040734.1|CF040734
EST:     TGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAG                         GAGCGGAAGTCATTCGATGAAAAGTTTGTCAGGATAGACACAGAAAAACTG
genomic: TGATTCTTGATTATTGTCGGTTTCATCAGGTCCCTGGGCGCTCAAACAAGgtttgctgca ... acatttgtagGAGCGGAAGTCATTCGATGAAAAGTTTGTCAGGATAGACACAGAAAAACTG