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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactcgttcccagcttgcactttaccgtttgtcattgtcaagccagagaagaaccaattttttatggaacatgcatctgcag

Basic information

species Zea mays
transcript GRMZM2G122039_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os11g06340.1 (Oryza sativa), 5'ss of exon 3
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactcgttcccagcttgcactttaccgtttgtcattgtcaagccagagaagaaccaattttttatggaaca-tgcatctgcag--------------------------------------------
|| |||||||||||||| ||||| ||||||||||| || |||||||||||||||||||| || || || ||||||||||| ||||||||||||||||   |      |  ||  |  || ||  | ||    |  | ||| | ||      |||| |   | | |  ||||| |  |                                             
AAGTGCGTCAAGAGAGTGGAGAAGGATGATACTGGGCATAAACACTGCACTGGGCAATATTTCGACTATTGGTCATGCATTGACAAATGTgtaagtatctgcatgt-gtgtgtgcaatatcgcatatc----tggaaccaaacaaa---tgatttatggagaagctctgcatatataagctaggttaataacatattttctgtggggtgcatctgcaggtag

upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G05620.1 (Glycine max), 5'ss of exon 3
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactcgttcccagcttgcactttaccgttt-gtcatt-gtcaagccagagaagaaccaattttttatggaacatgcatctgcag
   ||| | || ||  |  |   ||||||| |||| || |||||||||||||| ||||| |||||||| ||||| || || |||||||||||||||| |  ||   || | | |  | | | |   |||||| |    ||  | | | |||    |  |  || ||             
GCGTGCATTAAAAGGATACATGGTGATGATTCTGGGCAGAAACACTGCACTGGACAATATTTTGATTATTGGTCTTGTATTGACAAATGTgtaagtattattttttagttagtaaataagcatcgagtcatttggtttgcttgtgtataacatcataatcctgtaatgcag--------

upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G19380.1 (Glycine max), 5'ss of exon 3
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactcgttcccagcttgcactttaccgttt-gtcatt--gtcaagccagagaagaaccaattttttatggaacatgcatctgcag
   ||| | || ||  |  |   ||||||  |||| || |||||||||||||| ||||| |||||||| ||||| || || |||||||||||||||| |  |     | | | |  | | | ||  ||||||  ||          |    |  ||    |    | | || | | ||||
GCGTGCATTAAAAGGATACATGGTGATGAATCTGGGCAGAAACACTGCACTGGACAATATTTTGATTATTGGTCTTGTATTGACAAATGTgtaagtattattgtttggttagtaaataagcattgagtcatttggtttgcttgtgtattctcttataacatcataatcctgta-ccgcag

upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: AT1G15120.2 (Arabidopsis thaliana), 5'ss of exon 5
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagt-actcgttcccagcttgcactttaccgtttgtcattgtcaagccagagaagaaccaattttttatggaacatgcatctgcag
  ||| ||||||||| |  |   ||||||| |||| ||||| || |||||||| || || ||||| ||||||  |||||| ||||||||||||||| ||| |      | |   | ||| | ||||     | | |   |    ||                                
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgtt---attttgctgtttcatcatatgatatcttctaaag------------------------------

upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: AT2G01090.2 (Arabidopsis thaliana), 5'ss of exon 4
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactcg--------ttcccagcttgcactttaccgtttgtcattgtcaagccagagaagaaccaattttttatggaacatgcatctgcag-------------------------------
                |  |  |||||||  |||| |||||||| |||||||||||||| ||||||||||||   ||  | |||||||||||||||    |        ||  | |  | ||| | |   || |  |   | ||   | | |   | | | ||    |  |   | | | | |||                               
---------------ATCCAAGATGATGAGTCTGGCCACAAACATTGCACTGGGCAATATTTTGATTACTGGCATTGTGTTGACAAATGTGTAAGTGTGTGAGTGCTGTTTTTCTgtatacacctaaagtttcgcgaaactaaaatgacaaagacagctacttggagtctatttttc-tttccagggttatataaaatgatgtggatgcttaacat

upper sequence: GRMZM2G122039_T06 (Zea mays), 5'ss of exon 3
lower sequence: AT1G15120.1 (Arabidopsis thaliana), 5'ss of exon 4
AAATGCGTCAAGAGAGTTGAGAATGATGATACTGGTCACAAACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagt-actcgt----tcccagcttgc-actttaccgtttgtcattgtcaagccagagaagaaccaattttttat-ggaacatgcatctgcag
  ||| ||||||||| |  |   ||||||| |||| ||||| || |||||||| || || ||||| ||||||  |||||| ||||||||||||||| ||| |     |   |  ||||   || | | | ||  ||  || |   ||      ||  |  |   || |||   || |||| |||
GCATGTGTCAAGAGAATCCAAGGTGATGATTCTGGCCACAAGCATTGCACTGGCCAGTATTTTGACTACTGGCAATGCATTGACAAATGTgtaagttacttgaattatgttattttgctgtttcatcatatgatatcttctaa--agtttgatactgagatgaaattggattttggatcttcag

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|56382672|gb|CV985341.1|CV985341
EST:     AACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGT                         GTAGCATCAAAGCTCTTTAAGAAGCTCAAATGATTTGTGCGATGTGATGCG
genomic: AACACTGCACTGGGCAATACTTTGATTACTGGTCATGCATCGACAAATGTgtaagtactc ... gcatctgcagGTAGCATCAAAGCTCTTTAAGAAGCTCAAATGATTTGTGCGATGTGATGCG