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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgatagaagctaacacctctctctctctcccccccctccctctcgctatccctgtggctctccctttctctgttgtatgtgtggactcaccgactcaggcacacgtgtgcaaaacagaattatttaaattcatcatggatttatgtttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCAGACAGACAATGAGTTGTT

Basic information

species Zea mays
transcript GRMZM2G147450_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 6
gtaagtgatagaagctaacacctctctctctctcccccccctccctctcgctatccctgtggctctccctttctctgttgtatgtgtggactcaccgactcaggcacacgtgtgcaaaacagaattatttaaattcatcatggatttatgtttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCAGACAGACAATGAGTTGTT
                                                                         |  ||  | |     ||  ||  |           ||     | |||| ||  |   | |  || |||  ||||   || |   ||||||| ||||| ||||| || |||||||| |||||| ||||||| || ||||| ||||||||||| ||||||||||| |||| ||| ||  ||||||||||
------------------------------------------------------------------------gtaagtattgtcacctgatacattgctctctatgtccg-acaaacaacaaaagcaacaataaacaccatcaatttgctttatatgcagATGATGTGGACACACGCGCCATAACACGGAGATTACGAGAAGATGGTAGTCTAATTGGTGTCTTAAGTACTGATCAATCTCGGACCGATGATGAGTTGTT

upper sequence: GRMZM2G147450_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 5
gtaagtgatagaagctaacacctctctctctctcccccccctccctctcgctatccctgtggctctccctttctctgttgtatgtgtggactcaccgactcaggcacacgtgtgcaaaacagaattatttaaattcatcatggatttatgtttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCAGACAGACAATGAGTTGTT
                                                                 |       |    |  || | |  | ||   ||   |  |     | || | ||| | |   |||   || | | | | |     | |   ||||||||||| || ||||| ||||| || || |||||| |  || | ||||| ||||||||||| |||||||||||  | ||| | |||||  | ||  |  |
----------------------------------------------------------------gtaagaaatttatataaatatata-attctttgagaaaatctactctctgtacaactgcaagttttgcctttaaccttggtg---atatgcaacagATGACGTTGACACACGGGCTATCACGCGCAGATTACGGCAAAAAGGCAGCCTTATTGGTGTGTTGAGTACTGACAATTCTAAAACAGAGGAGGAACTACT
















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|22472307|gb|BU036787.1|BU036787
EST:     GAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATAT                         ATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
genomic: GAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATATgtaagtgata ... tttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
EST: gi|26457213|gb|CA828796.1|CA828796
EST:     CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATAT                         ATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
genomic: CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATATgtaagtgata ... tttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
EST: gi|89252056|gb|DY623842.1|DY623842
EST:     CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATAT                         ATGACGTGGATACACGTGCTAT
genomic: CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATATgtaagtgata ... tttttgacagATGACGTGGATACACGTGCTAT
EST: gi|148945107|gb|EC890301.2|EC890301
EST:     CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATAT                         ATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGA-GACGGCAGTC
genomic: CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATATgtaagtgata ... tttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
EST: gi|14569352|gb|BI097675.1|BI097675
EST:     CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATAT                         ATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC
genomic: CAAAGAAACACTTGAAGAGTATCTGACTAAGAGGAACATCATGGGAATATgtaagtgata ... tttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacgtgtgcaaaacagaattatttaaattcatcatggatttatgtttttgacagATGACGTGGATACACGTGCTATAACACGAAGATTAAGAGAAGACGGCAGTCTTATTGGTGTCTTGAGTACTGATCAGTCTCAGACAGACAATGAGTTGTT
                                           tgttttt  CT-rich tract
                 aattatttaaattcat  TA-rich tract