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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcatgtcactcgctgccattgctgatccacagggacacacaccagctagctgtccaagagttttctttttttttatgcttcaatctgttcactttgcttgcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCTCGCCTCACCCCTTCATCAACCTCAAGGGAATCCTT

Basic information

species Zea mays
transcript GRMZM5G879749_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G879749_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g55130.1 (Oryza sativa), 3'ss of exon 4
gtgagtcatgtcactcgctgccattgctgatccacagggacacacaccagctagctgtccaagagttttctttttttttatgcttcaatctgttcactttgcttgcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCTCGCCTCACCCCTTCATCAACCTCAAGGGAATCCTT
    || ||||      ||| |  || |      ||    ||      |      | ||   |  |  |||   |  |      || |||     | |||||     | |  ||| || ||||| ||||||||||||||||||||||| |||| |||| ||||||| ||  | || ||||||||||||||||| ||||||
----gtaatgt-gtaaactggcgatgtt----tgcatcaccatctctgaaactattatctctgcatcatctgactactg-----tccatcaacaaaatttgcacaaattc-tagGACATTACGTTCCCCAGTTGGCAAGGAAGATCGTTGAGTTCAACAAGGCCTCACCATATCCTTTCATCAACCTCAAGGGGATCCTT
















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|94479697|gb|EB708655.1|EB708655
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|91050418|gb|EB160836.1|EB160836
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|116817956|gb|EC860887.1|EC860887
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATTGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|29946821|gb|CB816342.1|CB816342
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|101395266|gb|EB819563.1|EB819563
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|71775053|gb|DR972931.1|DR972931
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|76020009|gb|DT947179.1|DT947179
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
EST: gi|93014934|gb|EB640454.1|EB640454
EST:     CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGG                         GCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT
genomic: CCCGCAGTACCGGCACCGAGATTTCTACATCGCCGGAGAAAGCTACGCGGgtgagtcatg ... gcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caagagttttctttttttttatgcttcaatctgttcactttgcttgcttccacagGCCACTACGTCCCCCAGTTGGCAAGGAAGATCGTCGAGTACAACGAGGCCTCGCCTCACCCCTTCATCAACCTCAAGGGAATCCTT
                                     ctttgcttgcttcc  CT-rich tract
      ttttctttttttttat  TA-rich tract