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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcagtacattaggtattgtaatcattcctttttatgttccatcaactgattttcagctgtagttcatgataaccttccctgctattgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG

Basic information

species Zea mays
transcript GRMZM2G013607_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g01930.1 (Oryza sativa), 3'ss of exon 5
---atcagtacattaggtattgtaatcattcctttttatgttccatcaactgattttcagctgtagttcatgataaccttccctgctattgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
    | | ||| | | ||  | | |    |    | |||   | ||  ||||||||| |  |||||||     |||| |   ||  |||| ||| |||||||||||||||||| || |||||||||||||| || |||||||| ||||| |||
ttattgattacttgatgttatttgacatgtttcatgtattgactattgactgatttttaattgtagtt---agtaacttggtctagtattttgggtactgcagGAGCATGTGAAGGTTCACTTGCGTGTTCAACCTGTCATGTCATAGTTATG

upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G07780.1 (Glycine max), 3'ss of exon 3
atcagtacattaggtattgtaatcattcctttttatgttc--catcaactgattttcagctgtagttcatgataaccttccctgcta-ttgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
       ||     ||||  |||     | |   || |||   ||  | | |  || |  |||  ||     ||| ||    |  || |||  | || ||||||||||||||| |||||  |||||||||| ||||| ||||| ||||| | |
--tgtgccacataatatttcaatttgctcatagcatattcattattgatttagctt-acttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG

upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G17370.2 (Glycine max), 3'ss of exon 4
----atcagtacattaggtattgtaatcattcctttttatgttcca--tcaactgattttcagctgtagttcatgataaccttccctgctattgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
    ||   ||   |     || |  |  | |||  | || || ||  | | || | ||    || | |   | | | |  || | | ||  ||  | || ||||||||||||||| ||||| ||||||||||| ||||| ||||| ||||| |||
tatgatggatatgctgacccttatcgt-gtgcctcataatatttcaatttagcttacttgtc-cttttgcctaagctga--tttcttact--tgatgttattgcagGAGCATGTGAAGGCTCGCTTGCGTGTTCAACTTGCCATGTTATAGTCATG

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|76293836|gb|DV033404.1|DV033404
EST:     TGGAATGTCCATGTTACAAGCTGCTCATGAAAACGACATACAGCTTGAAG                         GAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
genomic: TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAGgtacagatat ... gctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
EST: gi|60340656|gb|DN207629.1|DN207629
EST:     TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAG                         GAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
genomic: TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAGgtacagatat ... gctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
EST: gi|76294067|gb|DV033635.1|DV033635
EST:     TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAG                         GAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
genomic: TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAGgtacagatat ... gctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
EST: gi|76018911|gb|DT946081.1|DT946081
EST:     TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAG                         GAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
genomic: TGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAGCTTGAAGgtacagatat ... gctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgattttcagctgtagttcatgataaccttccctgctattgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG
                      tgataac  putative branch site (score: 2)
                     atgataa  TA-rich tract