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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttttgaactatttagttgtaacttgtaagtgtacactgttatcttttgtgaaactgacacacgggcatatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGGAATTGGTATCGGGGTCTCATCTGCTCTTGTACCCCTTTACATATCTGAG

Basic information

species Zea mays
transcript GRMZM2G153704_T07
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153704_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g04190.2 (Oryza sativa), 3'ss of exon 5
----------------------gtgtgttttgaactatttagttgtaact-tgtaagtgtac----actgttatcttttgtgaaactgacacacgggc-atatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGGAATTGGTATCGGGGTCTCATCTGCTCTTGTACCCCTTTACATATCTGAG
                       |||||||| |||||   |  |  |  |   ||||   ||    | ||| |||    |  || || ||||| |    || ||||||||||||||||| ||| | ||||||||||||||||||||||| |||||||| |||||||| ||  | || ||||||||||| ||||||||||||||||||
gtgtgtctatagattcgattaattgtgtttt-aactaggaatgtacacttgcttaagaaaaccgctattgtcatccaacggaaacctaacacatgaaagatttgcagTGCAACAGCTCATGATGTTCGCACAATGATTATTGGCCGATTACTTGCTGGGATTGGTATTGGCATATCTTCTGCTCTTGTGCCCCTTTACATATCTGAG

upper sequence: GRMZM2G153704_T03 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 3'ss of exon 5
-------gtgtgttttgaactatttagttgtaacttgtaagtgtac------actgttatcttttgtga--aactgacacacgggca-tatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGGAATTGGTATCGGGGTCTCATCTGCTCTTGTACCCCTTTACATATCTGAG
        | |||| |  || ||    |  |||  | |   | ||       |  |  |   ||| | |  |||  |   | |  || | | |||||| ||||| ||   | | |  || ||||| |||||  | || |||||||| ||||| || ||  |||||||||| ||||| || |||||||||||||||
gtctgtcatttgttgtagaccataagatcataatctttgtttatatcaaataaaagaaaatatttataataaacccaagtatgttcacttttcagTGCGACAGCACAGAGTGTGCAGACTATGATAATTGGTAGGTTACTTGCTGGCATTGGAATTGGCATCTCATCTGCACTTGTGCCACTTTACATATCTGAG
















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|211050167|gb|FL124868.1|FL124868
EST:     AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAG                         TGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGG
genomic: AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAGgtgtgttttg ... gcatatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGG
EST: gi|211138131|gb|FL231032.1|FL231032
EST:     AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAG                         TGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGG
genomic: AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAGgtgtgttttg ... gcatatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGG
EST: gi|211138132|gb|FL231033.1|FL231033
EST:     AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAG                         TGCAACAGCTCAAGATATCCGCACAATGATTATTTGGCCGATTGCTTGCTG
genomic: AGAACATTCATCCTGGATGCAGTCCCACTTGCTCTAGGTGCATTCTTGAGgtgtgttttg ... gcatatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATT-GGCCGATTGCTTGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttgtaagtgtacactgttatcttttgtgaaactgacacacgggcatatgcagTGCAACAGCTCAAGATATCCGCACAATGATTATTGGCCGATTGCTTGCTGGAATTGGTATCGGGGTCTCATCTGCTCTTGTACCCCTTTACATATCTGAG
                                aactgac  putative branch site (score: 2)
                   ttatctttt  TA-rich tract