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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaatacacgtttatgtatctgatgcctattactatgacttgtaagtcatgcgaccaactgatttgtttttgcaatttttgttatgtagGAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCTATGCTTTTATCACTGTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG

Basic information

species Zea mays
transcript GRMZM2G044348_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044348_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagcaatacacgtttatgtatctgatgcctattacta-tgacttgtaagtcatgcgaccaactgatttgtttttgcaatttttgtta-tgtagGAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCTATGCTTTTATCACTGTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG
|||||  | | |||   ||     || |   | ||| || |||        ||      | | || | |||||| |    |||    |  |||||||||| ||||| || || ||||| ||||| ||||| || ||||| || ||||||||| | ||||| ||| |  | ||||||||||||||||| || ||||
gtaagacaaagacgca-atcagattgtttttttttattagtgaaacaattttccaaattcgatctaaattgtttctttggtttgaaatggtgtagGAGACGATGTCAAAAGAACATGCCATGCGTTTCCCATTGGTTGGGAGTGCTATGCTTCTCTCACTTTTCTTATTGTTCAAGTTTCTCTCAAAGGACTTGG

upper sequence: GRMZM2G044348_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 3
gtaagcaatacacgtttatgtatctga--tgcctattactatgacttgtaagtcatgcgaccaactgatttgt-----ttttgcaatttttgtt-atgtagGAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCTATGCTTTTATCACTGTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG
||||| || |       | ||  |||   | | |||| ||||| | | |   |||||   |         |||     |||||  || ||  || ||| ||||||| ||||| || || ||||||||||| || ||||| ||||| || || ||||| |||||||| |||||||| ||||||||||| |||||||| ||||
gtaag-aacaattagccaagttcctgcctttcttatttctatgccatatttttcatgattctggaaagcctgtccgaattttgatatgttcattcatgcagGAGACAATGTCTAATGAACATGCTATGCGCTTTCCTTTTGTTGGGAGTGCAATGCTGTTATCACTATTCCTTCTCTTCAAGTTTCTATCAAAAGACTTGG
















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|148944600|gb|EC889730.2|EC889730
EST:     TTACTGTCTATGTGGGTTGCTACCGATCTGTGAAGCCAACTCCACCTTCT                         GAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCT
genomic: TTACTGTCTATGTGGGTTGCTACCGATCTGTGAAGCCAACTCCACCTTCTgtaagcaata ... tgttatgtagGAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgacttgtaagtcatgcgaccaactgatttgtttttgcaatttttgttatgtagGAGACCATGTCCAAGGAGCATGCTATGCGGTTCCCTTTAGTTGGAAGCGCTATGCTTTTATCACTGTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG
                      aactgat  putative branch site (score: 3)
                                         tttttgtt  putative PPT
                                       aatttttgttatgta  TA-rich tract