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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgttatggaattgtttatattttttttggttacaatatatgggagaagttgtgttcta...

Basic information

species Zea mays
transcript GRMZM2G098078_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g60440.1 (Oryza sativa), 5'ss of exon 6
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgtt--atggaattgttt--atattttttttggttacaatatatgggagaagttgtgttcta-
||||||||||| |  ||||| ||||||||||||||  |||||||||||||||  |||||||| ||||||||||| ||||| |||||||| |||||||||||| |||| |  |  ||       || || | |||  ||| ||||||  || |   |||||  ||| ||||     |   ||  | |   | |  |  |  ||   
TGGTTAGTTGGAACACAATATAAGCCAATGGAGCTAACAAAGTCAGATTGGGTGTCAATTAGGAAATCACCTCCATGGGCAATTGATTCCTGGGGACTGGgtaagcagagctaactc-----cttttccttcattacattcttgtttgattgttctgtttccataattttacaattcggaaactgttcaacagttccttgtcgga

upper sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgttatggaattgttta-tattttttt-tggttacaatatatgggagaagttgtgttcta
||| | |||||    |||||||| |||||||| ||| |||| || || |||||| ||||||  || || ||||| ||||||||||||||||||||  |||||  |      ||  ||      || | ||  |     |    |  || |||      |  ||| | || | ||| || | | |       | ||  || | 
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttattctcagttataaacttataattgaaatattagggggaatagaacaaaggaacattctgttattgtttcagtttctcttgcttgctg-attgt-

upper sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA09G38740.1 (Glycine max), 5'ss of exon 6
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgttatggaattgtttatattttttttggttacaatatatgggagaagttg--tgttcta------
||| | |||||    |||||||| ||||||||| || |||| ||||| |||| | ||||||  || || ||||| ||||||||||||||||||||  |||||  |      | |  || |  |||       |   |||  |  |     | | ||||||||  |     |  | |  | | ||||  | |    | || |       
TGGCTTGTTGGATCACAATACAAACCAATGGAGTTGGCAAAATCAGACTGGGATGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgt---tgttttctgttccttttgatgatagttcatagtgatagcaaattggtttatatggt-----gcaatagaacacgggaacaatctgctatttttgtgtct

upper sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA18G47590.1 (Glycine max), 5'ss of exon 6
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgct-tgttatggaattgtttatattttttttggttacaatatatgggagaagttgtgttcta------
||| | |||||    |||||||| ||||||||| || |||| ||||| |||| | ||||||  || || ||||| |||||||| |||||||||||  |||||    ||     | |   |   || | ||| || |    |  || ||   ||||   | ||| |  |    | | || | | || | ||  |||  | |       
TGGCTTGTTGGATCACAATACAAACCAATGGAGTTGGCAAAATCAGACTGGGATGCAATTAAGAAGTCTCCTCCATGGGCCATAGATTCTTGGGGCATGGgt----atgttgttttctgttccttttgatg-atagttcacagtgatagcaaattaggtttatatggtgcaat-agaacaca-ggaacaatctgttatttttgtgtc

upper sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 5'ss of exon 6
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgttatggaattgtt-tatattttttttggttacaatatatgggagaagttgtgttcta--
||| | |||||    |||||||| ||||||||| ||  |||||| || |||||  |||| || ||||| || || ||||||||||||||||||||  ||||| ||  |    || ||  |  |||   | | || | |     |||      |||||  |||   |  ||   || |  || |   |  | ||||| |     
TGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTTGGGGCTTGGgtaagtcttccactgtt--tccttttgtaggtatagtagatgcgttcatagtttgttacataaagtggtttaataaacgatctcttacta-ttgtgcttcccc

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|76289771|gb|DV029339.1|DV029339
EST:     GGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGG                         GGTGTTTAATATATGA
genomic: GGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataa ... ctcattgcagGGTGTTTAATATATGA