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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG

Basic information

species Zea mays
transcript GRMZM2G132184_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 3'ss of exon 4
-------gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
        |||||   ||||| |||||| | | ||    |  || |||  | ||  ||  |  |  ||| ||||  | ||  | ||||| || || ||||| ||||| |||||||||||||| ||||| || ||||||||||| |||||||| || |||||||||||||||||||| ||||| ||||
gtaagttttaagtccttgaattggattacgtattgcacaccacacgattcacatcttgtaattttgtatattatgctactcttgcagGATTACAATGCAAAACTCTCAGATTTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G02570.1 (Glycine max), 3'ss of exon 4
gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
    || | ||   |  | ||      |  ||| |      || | ||    |  |    || || ||  | ||   |||||||| || || |||||||| |||||||| ||||| ||||| || || | |||||||||||| ||||| ||||||||||| |||||||||||||| ||||
----gtaagtgtcaaaaactacaataagattgcatttccccctttttatcagtcta----atattgtaccgatt---cagGAGTACAATGCCAAGCTCTCAGATTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G16300.1 (Glycine max), 3'ss of exon 5
gtaagt-taatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
||||||   |    |   |||||  |   | |   |  | ||   |  | |  |   | |||| ||||  |   | | ||||| || || || |||||||| || ||||| ||||| ||||| || || |  ||||||||||||||||| ||||||||||| |||||||||||||| ||||
gtaagtgccaaattttaaattat-taccatttttcttttcattccttgatt--tgatttatatattattataactattcagGAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACTCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G40770.1 (Glycine max), 3'ss of exon 4
gtaagttaatgaata--ggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
||||||     |||      ||||  |   | |   |  | ||   |  | |  |      ||| ||||  |     | ||||| || ||  | |||||||| |||||||| ||||| ||||| || || |  ||||||||||| ||||| ||||||||||| |||||||||||||| ||||
gtaagtggccaaatgttaagttat-taccatctttcttttcattccttgatt--tgatctttatattattataacaattcagGAATACAATTCTAAGCTCTCAGATTTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
    || | ||      | ||      |  ||| | ||   ||   |  || ||  ||  || ||       ||   ||||| || || || |||||||| || ||||| ||||| ||||| || || | |||||||||||| ||||| |||||||| || |||||||||||||| || |
----gtaagtgcccgaaactacaataagattgcat-atttcctcctttttgtta-gtctaatattgccccaatt---cagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT3G28690.1 (Arabidopsis thaliana), 3'ss of exon 3
--------gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgta---cagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
        | |||  | | ||   ||| |       | || | | |  ||| |||  |  || ||  ||    | | ||||   |   ||||| ||||| |||||||||||||||||||||||||| ||||| |  || |  |   | ||| | || || || || ||||| |||||||| ||||| ||||
gtatgtctgaaagccacttaacccgataacctcaactctg-tcctttctctctatgtttataaattttagaaaaaaatgctcccattgcagGAATATAATGCAAAGCTCTCTGATTTTGGGCTTGCAAAAGATGCTCCAGACGAGAAAAAATCCCACGTATCAACCCGAGTCATGGGAACTTATGGTTATG

upper sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
|||||| ||| || |   | ||  | |    | ||        ||||  | | |  |  ||| | | ||  ||  | |||||||| || || || || ||||||||||| ||||| ||||| || || |  || ||||| |||||||| ||||| || || |||||||| ||||||||||
gtaagt-aataaaaactgtgata-aattcacgtttgtctcctaatatcattccatcttttatatgacatc-ctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG

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|76282950|gb|DV022518.1|DV022518
EST:     GACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCG                         GAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTA
genomic: GACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgtaagttaat ... gcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTA
EST: gi|148928770|gb|EC873531.2|EC873531
EST:     GACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCG                         GAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTA
genomic: GACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgtaagttaat ... gcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTA
EST: gi|5499049|gb|AI854916.1|AI854916
EST:     GACCAGTCATTTATCGCGATTTTAAAACATCTAACATACTGCTGGATGCG                         GAGTATAACGCANAGCTCTCTGATTNTGNGCTTGCGAAAGACGGACCTGTA
genomic: GACCAGTCATTTATCGCGATTTTAAAACATCTAATATACTGCTGGATGCGgtaagttaat ... gcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
                              atcatatgttatatt  TA-rich tract