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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttcatgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG

Basic information

species Zea mays
transcript GRMZM2G142334_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 9
--cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttcatgtgtttttgctcatacta--tactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG
      |||||||||   | | |  |   |||    | |   | ||    ||    ||  ||  |||| ||| || |||||  |  |  |  || || || |||||||||||| |||| ||||| |||||||| ||||||||||||||||||||||||||| ||||||| |||
ggtgatttatactatt-ttctgtagccatagaggtgttatttttctgcagctg---ttacttcgatgtttttgtgttcatataaattttttccttttgttccagCTTTGGGATATTAACATGAACTCTGGTCCAGTTGCAACATTCCAGGTTCATGAGTATTTAAGGCCCAAG

upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G20830.3 (Glycine max), 3'ss of exon 9
cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttca-tgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG
|| |  || |||| |  ||   |       |   |      |    ||||  | ||  | |||      |  | |   |   ||    |||  | || ||| | |||||  | || ||| |||||||||| |||||||| |||||||||||||||||| ||||||| |||
cagagcatgctat-gtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAG

upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 9
--cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttcatgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG
  || |  || |||| |  ||   | |      || |     |    || ||  | |||  |  |     |    ||  |   || ||||||  |||| ||| | |||||  | || ||| |||||||||| |||||||||||||||||||| |||||| ||||||| |||
ggcagagcatgctat-gtaattcatttttttttacttttgtttggattccctctgtttttatcaacaaaatcccactagtctcat-ctgtcttgtatttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACATTCCAGGTTCACGAGTATTTAAGGCCAAAG

upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 9
cacattatactatcgctatctttctccagaaacataaacatactatcactaagatttgtttca-tgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG-------------------------------
|| |  || |||| |  ||   |       |   |      |    ||||  | ||  | |||      |  | |   |   ||    |||  | || ||| | |||||  | || ||| |||||||||| |||||||| |||||||||||||||||| ||||||| |||                               
cagagcatgctat-gtaattcattaattctactttgtttggatacacactctgtttcttatcaacaaaatccttcaagtctcatctcatcttgtttttcagTTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGGTTAGATTCCCATGTTTGGATGAGCAATGAA

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|32806442|gb|CD958676.1|CD958676
EST:     TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAG                         CTTTGGGATGTTA
genomic: TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAGgtctgtacct ... attattacagCTTTGGGATGTTA
EST: gi|67016408|gb|CO445157.1|CO445157
EST:     TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAG                         CTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT
genomic: TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAGgtctgtacct ... attattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT
EST: gi|71417754|gb|DR804198.1|DR804198
EST:     AGTCGGGACTACATGATTCTGAAG                         CTTTGGGATGTAAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT
genomic: AGTCGTGACTACATGACTCTGAAGgtctgtacct ... attattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT
EST: gi|6020391|gb|AW065319.1|AW065319
EST:     TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAG                         CTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT
genomic: TTTCGAAGGATGGGAGGCATATTCTCAGTCGTGACTACATGACTCTGAAGgtctgtacct ... attattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcactaagatttgtttcatgtgtttttgctcatactatactgtctattattacagCTTTGGGATGTTAAGATGAATTCTGGTCCTGTTGCAACATTCCAGGTTCATGAGTATCTAAGGCCTAAG
                                          tctattatta  TA-rich tract