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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcataattctatgcatatataccgatctcttgtttaaggttggttaactgtatcttttgtgagtttgtctacactctacag

Basic information

species Zea mays
transcript GRMZM2G012501_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g12590.1 (Oryza sativa), 5'ss of exon 5
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtac--tagcataattctatgc--atatataccgatctcttgtttaaggttggttaactgtatcttttgtgagtttgtctacactctacag
||| || ||||||||||||||||||||||| |||||||| ||||| ||||| || ||||||||||||||| ||||||||||||||||||| |||   |||||||  |   ||| |||||| |  | | | ||  |  |||| |   | ||     |||||||  | || |  |                  
CCTCCTTACTCAAATTGAGAGATATTTGAAACAAGCTATAGTTGATAAGAATCCTGTGGTTGCTAGTGCTGCTCTTGTTAGTGGCATCCATCTGCTTCAGgtacacttctatagttctatacgaaaaaaaacataattcttttcggaagtcaaa-aactgtacttattatatgcag---------------

upper sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G01470.1 (Glycine max), 5'ss of exon 5
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcataattctatgcatatataccgatctcttgtttaaggttggtta-actgtatcttttgtgagtttgtctacactctacag
||| ||  | ||||||||||| ||||| || ||||| ||||| || || || ||||| ||||| |||||| |||| ||||||||||| || ||   ||||||| |||                 ||||  || || | ||  |   ||  || |   |    ||  | |   ||  | |    |||||
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagt---------------catactaatttccttttgtaatctgtatatatcctcatattcattacgctgattgcttattacag

upper sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G01520.1 (Glycine max), 5'ss of exon 5
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactag-cataattctatgcatatataccgatctcttgtttaaggttggttaactgtatcttttgtgagtttgtctacactctacag
||| ||  | ||||||||||| ||||| || ||||| ||||| || || || ||||| ||||| |||||| |||| ||||||||||| || ||   ||||||| ||| |||| |  | | | | | ||   ||   || | ||   |    |   | |||  ||  ||   || | ||||        
CCTCCTTTCACAAATTGAGAGGTATTTAAAACAAGCCATTGTAGATAAAAATCCAGTTGTTGCAAGTGCTGCTCTAGTTAGTGGCATTCATCTACTCCAGgtaatagtcatactaatttccttttgta---attctttatatatcctcatattcatctatgcttcttg--cttat-tacag-------

upper sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA11G12610.2 (Glycine max), 5'ss of exon 5
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcataattctatgcatatataccgatctcttgtttaaggttggttaactgtatcttttgtgagtttgtctacactctacag
 || || |||||||||||| ||||| |||| ||||||||||| |||||||| ||||| ||||| |||||  | || ||||| ||||| ||  |   ||||||| ||  | || |||||   ||  | |  ||||| | ||  |  |  |||  |||  | || | ||      ||  | ||   |||
TCTCCTTACTCAAATTGAGCGATATCTGAAACAAGCTATTGTAGACAAGAATCCAGTCGTTGCAAGTGCAGCCCTGGTTAGCGGCATTCATATACTCCAGgtattatta-aaatctattggtaattccttatctcatattccacatgtgttgcctgcttattctatg------tccccccttatcag

upper sequence: GRMZM2G012501_T03 (Zea mays), 5'ss of exon 4
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 5'ss of exon 5
CCTACTAACTCAAATTGAGAGATATTTGAAGCAAGCTATTGTTGACAAGAACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcataat-tctatgcatatataccgatct-cttgttta---aggttggttaactgtatcttttgtgagtttgtctac-actctacag-----
||| || || || |||||| |||| ||||| ||||| || |||||||||||||| || ||||| |||||  ||||||| ||||| || || ||   |||||||| |      | | | |  || | |     |||  || | ||   |  ||       |  ||  | |   | | ||  ||  | | |   |     
CCTTCTCACCCAGATTGAGCGATACTTGAAACAAGCAATAGTTGACAAGAACCCTGTTGTTGCAAGTGCAGCTCTTGTCAGTGGAATTCATCTTCTCCAGgtacaattgggttgtgtgtagattttttttattctatttatatatttaaattatcctcttacatgctctaataatatgattattatttttttggatag

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|211106006|gb|FK992441.1|FK992441
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|148973647|gb|EE024760.2|EE024760
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|76917670|gb|DV166948.1|DV166948
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|211106005|gb|FK992440.1|FK992440
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|67016076|gb|CO444825.1|CO444825
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|148970762|gb|EE021504.2|EE021504
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|148967121|gb|EE018293.2|EE018293
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
EST: gi|148946070|gb|EC891366.2|EC891366
EST:     ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAG                         GCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG
genomic: ACCCAGTGGTTGCTAGTGCTTCTCTTGTTAGTGGCATCCACCTGGCCCAGgtactagcat ... cactctacagGCAAACCCAGAAATTGTGAAAAGATGGAGCAACGAAGTTCAGGAAGCTGTG