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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcttatttctattctgtaagtaccaaaacttctaccacttcttaaaaaataccagctacttacaactagtacttaaatcattgtaattttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTATTTGCATTTGGAAAATGTACGGCAAAAG

Basic information

species Zea mays
transcript GRMZM2G018946_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G018946_T04 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g47830.1 (Oryza sativa), 3'ss of exon 5
ttgcttatttc--tattctgtaagtaccaaaacttctaccacttcttaaaaaataccagctacttacaactagtacttaaatcattgtaattttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTATTTGCATTTGGAAAATGTACGGCAAAAG
  |  || ||    |  || ||  ||      | | |  |  || || |  || |  |  |   | | | ||    | ||||  |  |   | | ||| ||||||| ||| ||||||||| ||||||| ||| || ||||||||||||||  || |||||||||||| ||| |     |||
--gagtacttgaggaaactatatatatttgctcatttctctgttatttactaagagtacttctattctattaagcttcaaattgtgattcgtgtatttgcagGCCTATTAACAATTTCAACGAAGTGGTGCTACATTTCATTGAGTGTATGCATGTGCATTTGGAAAGTGTTCAATCGAAG
















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|78091533|gb|DV519907.1|DV519907
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|76915058|gb|DV165799.1|DV165799
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|71442030|gb|DR823080.1|DR823080
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|93013550|gb|EB639070.1|EB639070
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|71435524|gb|DR816574.1|DR816574
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|91876766|gb|EB406723.1|EB406723
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|78088916|gb|DV517309.1|DV517309
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|31558428|gb|CD527640.1|CD527640
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|71419272|gb|DR804704.1|DR804704
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
EST: gi|71446837|gb|DR827887.1|DR827887
EST:     ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCG                         GCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA
genomic: ACTCTCGTAGGGTTTCAAACTAAGCAGTATGGTTTTGCTCGCGCTATTCGgtaaatgata ... ttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaataccagctacttacaactagtacttaaatcattgtaattttgtttacagGCCTGTTACCAATTTCAATGAAGTGGCGCTGCACTTCATTGAGTGTATTTATTTGCATTTGGAAAATGTACGGCAAAAG
             tacttac  putative branch site (score: 1)
                                           ttttgttt  putative PPT
                             ttaaatcattgtaatt  TA-rich tract