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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcagac...

Basic information

species Zea mays
transcript GRMZM2G054715_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g49000.1 (Oryza sativa), 5'ss of exon 6
GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcagac-----
 |||||||||||||||||||||||||| ||||||||| |||| ||||||||||||||||| ||||| ||||| |||| ||| ||| |||||||  |   |  |||||||   | |  | |  |   ||| | || |||||||  ||   || ||  | ||  ||  ||     |    || |||| ||     
ACGGAGGCTGGAGAAGCGTATTTATATTCCACTTCCAAATTTTGAAAGCAGAAAGGCACTCATCAATATTAACCTTAAAACTGTTGAGgtatg-atattacttatcttttctg-tgttgtaattccatcctagttccctttctgtttactccttcagcgtt-ttatgattgcctc--cttaatcaaacagtgc

upper sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 6
lower sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcagac
| ||||| |||| || ||||| |||||||||||||||||||| |||||  | ||||| |||||||| || ||||| ||||||||| ||||  ||  ||  ||||  ||  |  | || ||||  | |||| | | |   | |       ||| ||| ||  ||   |||||   | | ||| ||||  
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagt--tgtggatacattgttacaaca-ctcgcaa-atctctctactggtccaacgcaatcaattt-agcaat---gaacattgtcacttt-tcag--
















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|50339296|gb|CO534422.1|CO534422
EST:     TAGAACAGTTCAG                         ATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
genomic: TAGAACAGTTCAGgtatgtgttg ... gtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
EST: gi|76932373|gb|DV173031.1|DV173031
EST:     ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG                         ATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
genomic: ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttg ... gtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
EST: gi|60401302|gb|DN234109.1|DN234109
EST:     ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG                         ATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
genomic: ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttg ... gtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
EST: gi|211348017|gb|FL479638.1|FL479638
EST:     GCACTTATCAACATTAATCTTAGAACAGTTCAG                         ATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
genomic: GCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttg ... gtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
EST: gi|60400747|gb|DN233554.1|DN233554
EST:     ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAG                         ATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT
genomic: ATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttg ... gtctcaacagATAGCTGCGGATGTTAACATCGATGAGGTTGCTCGGAGGACAGAAGGCTAT