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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcccaaacccattccctttagcagtgcaataataataaaaaacaccgatttcctcatttttttccgttgttatctagcgcacaaccaccgaatacagtttaatagattgctattgatgaaggacacgaagttgtttacagagctgattgtttggcgttcgtatgtgtactggtgtgcagAGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGATCAAGGGGCTCGGCCCACCCCACAACATATCTACTGCCGCCAAGGACCT

Basic information

species Zea mays
transcript GRMZM5G831584_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G831584_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g64262.1 (Oryza sativa), 3'ss of exon 1
gtattcccaaacccattccctttagcagtgcaataataataaaaaacaccgatttcctcatttttttccgttgttatct-agcgcacaaccaccgaatacagtttaatagattgctattgatgaaggacacgaagttgtttacagagctgattgtttggcgttc---gtatgtgtactggtgtgcagAGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGATCAAGGGGCTCGGCCCACCCCACAACATATCTACTGCCGCCAAGGACCT
                                           |  |  | | |||||| |  | ||  |   |  |||    |  ||||      |||   ||| || | | |     |||| |||  |  |  |    ||  |     ||| | || |||||   |    ||     |  || ||||||||| |||||||||||||| ||||||||||| || ||||| || ||||||||||| ||  | || || ||  |||| || ||||| |||| ||||||
-----------------------------------------gtatgcctcaaattcctcgtactatttagcaatgttctcgatgtgcaac-----gataggatttgatcgttgg-----gatggagggaatcatttcaccta--ggctgaattttgtgccgttctgtgatcatgcctctgcctgtagAGTGGAGAATGGTTCTCGTGGATTTGAGGAACCACGGGAGATCAGCGGGGATCAAGGGCCTGAGGCCGCCGCATGACATGTCAACTGCGGCCAGGGACCT

upper sequence: GRMZM5G831584_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0007g03010.t01 (Vitis vinifera), 3'ss of exon 1
gtattcccaaacccattccctttagcagtgcaataataataaaaaacaccgatttcctcatttttttccgttgttatctagcgcacaaccaccgaatacagtttaatagattgctattgatgaaggacacgaagttgtttacagagctgattgtttggcgttcgtatgtgtactggtgtgcagAGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGATCAAGGGGCTCGGCCCACCCCACAACATATCTACTGCCGCCAAGGACCT
                                                                              | |        |   ||||| ||   |||    ||   |  ||   | |  |     | | | |  |  |   |||   | | | | |    |  | || || ||| |||||||||||||| ||||||  |||||||||||| ||||| |||| | |  | ||  |    ||||| ||  ||||    | ||| ||  | ||  |
--------------------------------------------------------------------------ggatttgaaagttttctgggaatatag---aatg---tgtgttaaattgtgtattcacttatatcttcttacttttctgt---gagattgaacaaatttttgtatgtagATTGGAGGATGGTTCTTGTGGACCAGAGGAACCATGGAAGATCAGCTGAGGTAGAAGGTTTATATCCACCTCATGACATTGTCAATGCTGCTCAAGATTT
















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|74241544|gb|DT649458.1|DT649458
EST:     CTTCTCTCGCGCCCTCGTCTCCGAACTCCGTAACCGCTCCCCTTCAGACG                         AGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGA
genomic: CTTCTCTCGCGCCCTCGTCTCCGAACTCCGTAACCGCTCCCCTTCAGACGgtattcccaa ... tggtgtgcagAGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgaagttgtttacagagctgattgtttggcgttcgtatgtgtactggtgtgcagAGTGGAGGATGGTTCTCGTGGACTTGAGGAACCATGGCAGATCGGCTGGGATCAAGGGGCTCGGCCCACCCCACAACATATCTACTGCCGCCAAGGACCT
                agctgat  putative branch site (score: 4)
      ttgttta  TA-rich tract