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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctccttatccttgctttttcccaatattgtgaatatcatagacaggctgtgttgcttaacataaatcgattcacacggaatatttctttttacctgcacttgcatggaaactgtagcatgctagcaacttatattattaggaactactttgcag

Basic information

species Zea mays
transcript GRMZM2G120578_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120578_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g15550.1 (Oryza sativa), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctccttatccttgctttttcccaatattgtgaatatcatagacaggctgtgttg-cttaacataaatcgattcacacggaatatttctttttacctgcacttgcatggaaactgtagcatgctagcaacttatattattaggaactact---ttgcag
||| |||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||| || || || |||||||||||||| || || ||| |   |   ||   |  |||||||    |||     |   ||  |||   |     | ||  | ||  || |  | | |     |  ||| ||||| |   ||||  || |||| | |   |   | |  ||| || || || ||| ||||    || |||
TGTCCTTGATGGTATTGTCCAGTTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTTCCGCTTTGCTCAATTCCATCCCCAAAGAAAgta-aggactccatttattttttttcc----attagaggtgaaattaacacttttgacagactcgaaattgattgtcttaaattattttcttccttttatccttacttctatagaaaattt--tagtttggtcactaatgttctttggacctaccaaatttcag

upper sequence: GRMZM2G120578_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G41600.1 (Glycine max), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctcctt---------atccttgctttttcccaatattgtgaatatcata-gacaggctgtgttgcttaacataaatcgattcacacggaatatttctttttacctgcacttgcatggaaactgtagcatgctagcaacttatattattaggaactactttgcag
||| |||||||| || |||||||||||||| |||||||||||||| |||||||| |||||  |||| || || |||||||||||||  ||||| ||||  ||| | |   ||         ||  ||| | |   |  ||||| ||| | ||  |  | |   ||  |||||| |  |   || ||| | | | | | || ||                                                                   
TGTACTTGATGGAATAGTTCAATTGACTGAGAAGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCTGTTCAATTCAGTCCCCCAAAACTgtaaagccatttgatctgatgatttttgttctgagcttatattatgactgtcgaataaaaaaatgaattgcttcagtt---tcaatttaaaagtattgttact-------------------------------------------------------------------

upper sequence: GRMZM2G120578_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G13210.2 (Glycine max), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctccttatccttgctttttcccaatattgtgaatatcatagacaggctgtgttgcttaacataaatcgattcacacggaatatttctttttacctgcacttgcatggaaactgtagcatgctagcaacttatattattaggaactactttgcag
||| |||||||| || |||||||||||||| | |||||||||||| |||||||| |||||  |||| || || |||||||||||||  || || ||||| ||| |     ||   |      |||  |      |   || | || ||| | |     |    || || ||||| ||||     ||| |     | |   | |                                                         
TGTACTTGATGGAATAGTTCAATTGACTGAGAGGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCTGTTCAATTCATTCGCCCAAAAATgtaaagtcatttgatccgatgattttgcttctgagcttatgttat-gactgtcaaa--taaaaaatattaatcgcttcagtttcaatttaaaagtatggttcc---------------------------------------------------------

upper sequence: GRMZM2G120578_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAATTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctccttatccttgctttttcccaatattgtgaatatcatagacaggctgtgttgcttaacataaatcgattcacacggaatatttctttttacctgcacttgcatggaaactgtagcatgctagcaacttatattattaggaactactttgcag
|||||||||||| |||||||| ||||  || || ||||||||||| || ||||| |||||| ||||||| || || |||||||||  |||||| || |  ||| || ||  |||         |||| |  |||| || | | ||       |  ||||| | ||  |    |  || ||  ||| ||| |||||   |   ||      |  ||  ||                                         
TGTGCTTGATGGCATTGTTCAGTTGAGCGAGAAAGATGAATGTGCCTATCAGGAGATGATTGCTCACCTTCCCCTTTGTTCAATTGAATCCCCCAAGAGAgta-atttcactat---------ttccaagcattg-gagttttatt------ccatgttg-tcaatgttctccttttgacttggattatatcttt---ctcacaaccatttttaatttgcc---------------------------------------

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|32919151|gb|CF023963.1|CF023963
EST:     AGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAG                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGATTTCCAGA
genomic: AGGAAATGATTACTCACCTCCCACTCTGTTCAATTCCATCCCCTAAAAAGgtatatctcc ... tactttgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGATTTCCAGA