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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatatctgaaacatgacgcattgacattttgattgtaaagctaaatcctctcaaatttggcttctgagttgaaacattaagtaaaatgttggtgggaaatgctaacataacgattatacttgcgccctggattagccctggatactaacagagttttacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG

Basic information

species Zea mays
transcript GRMZM2G037585_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G037585_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g71000.1 (Oryza sativa), 3'ss of exon 2
gtaagcatatctgaaacatgacgcattgacattttgattgtaaagctaaatcctctcaaatttggcttctgagttgaaacattaagtaaaatgttggtgggaaatgctaacataacgattatacttgcgccctggattagccctgga-tactaacagagttt--tacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG
|| ||  | ||| || |       ||    |||  |||| ||   |||||| || | || ||| | || | ||       ||| ||| ||   |  ||   ||||| |  || ||    | |          ||  ||| |||||||  |||||   | | |   ||||||||||||||||||||||||||||||||||| ||||| || ||||||||||| ||||| ||||||||||| ||||||||||||||  ||||||||||||||||||
gtcagtctttcttaacctatctagatc--tattgagatttta---ctaaatact-tgaagtttaggttttcagcg-----atttagttaatattcagta--aaatgttggcagaattgctgt--------tttgctttatccctggagcactaatgaaatataccacttcccagGCTGTTGCTGTGAAGCAACTTGATCGCAATGGTCTTCAAGGAAATAGAGAATTCCTGGTTGAGGTCCTCATGCTCAGTCTTCTACATCACACTAACCTGG

upper sequence: GRMZM2G037585_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G28730.1 (Glycine max), 3'ss of exon 2
gtaagcatatctgaaacatgacgcattgacattttgattgtaaagctaaatcctctcaaatttggcttctgagttgaaacattaagtaaaatgttggtgggaaatgctaacataacgattatacttgcgccctggattagccctggatactaacagagttttacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG
                                                         || ||     ||||   | ||   |   ||  | | ||| |      || ||  |||||         |||  | |  || |    |  ||  | | |   || | | |  ||||  |||||||| || || ||||| || ||||| || ||||||||| | || ||| |||| || ||||| |||||||||||||| |||||  | || || |
---------------------------------------------------------aagttatctgtctgctctcaattttcctgttgattattgctc-----tgttactataac-------tctgcctctttcat-aatttttaatgatgaaatcattct-cgttgcagGTAGTTGCTGTAAAACAGCTTGACCGAAATGGTCTTCAAGGAAATCGAGAGTTTTTGGTGGAAGTTCTTATGCTCAGTCTCTTGCATCATCCAAATCTTG

upper sequence: GRMZM2G037585_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G10360.1 (Glycine max), 3'ss of exon 2
gtaagcatatctgaaacatgacgcattgacattttgattgtaaagctaaatcctctcaaatttggcttctgagttgaaacattaagtaaaatgttggtgggaaatgctaacataacgattatacttgcgccctggattagccctggatactaacagagttttacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG
                                                         || ||     ||||     ||   |    |  | | ||| |      || ||  ||||| ||    ||| ||        ||  | |   || | | |   || | |||| ||||  |||||||| || || ||||| || ||||| || ||||||||| | || ||| |||| || ||||| |||||||||||||| |||||  | || || |
---------------------------------------------------------aagttatttgtctgctggaaattttcccattgattattgctc-----tgttactataactatgcctctttcg--------taatcttcattaatgaaatcattct-cttcgcagGTGGTTGCTGTAAAACAGCTTGACCGAAATGGTCTTCAAGGAAATCGAGAGTTTTTGGTGGAAGTTCTTATGCTCAGTCTCTTGCATCATCCAAATCTTG

upper sequence: GRMZM2G037585_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0020g01770.t01 (Vitis vinifera), 3'ss of exon 2
gtaagcatatctgaaacatgacgcattgacattttgattgtaaagctaaatcctctcaaatttggcttctgagttgaaacattaagtaaaatgttggtgggaaatgctaacataacgattatacttgcgccctggattagccctggatactaacagagttttac-ttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG
                                                                   |||   || | | ||  | ||     ||| ||   |||| ||  || ||  |    | |  |   |  |||     | | |   ||   | | ||   ||  ||||  ||||||||||| |||||||| || |||||||| ||||||||||| |||||  |||| |||||||||||||| || |||||||||||| | ||||| |
-----------------------------------------------------------------aatct---tttatatatggaatatgg-attgctgaataatgtta--atcactgtgtctcatctggtatttattgatttttggt-tcaatgaattattgtatttgcagGTAGTTGCTGTGAAACAACTTGACCGAAATGGCCTTCAAGGAAATAGAGAATTCTTGGTGGAGGTTCTCATGCTTAGCCTCTTACATCACCCAAACCTTG

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|101388312|gb|EB816168.1|EB816168
EST:     GGGAGGGAGGTTTTGGTCGTGTATATAAAGGACGCTTGGAGAATGGACAG                         GCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAA
genomic: GGGAGGGAGGTTTTGGTCGTGTATATAAAGGACGCTTGGAGAATGGACAGgtaagcatat ... tacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattatacttgcgccctggattagccctggatactaacagagttttacttcccagGCTGTTGCTGTGAAGCAACTTGATCGTAATGGCCTCCAAGGAAATAGGGAATTTCTGGTTGAGGTTCTCATGCTCAGTCTCTTACATCACACTAACCTGG
                               tactaac  putative branch site (score: 0)
                                          ttttacttccc  putative PPT
                                          ttttactt  TA-rich tract