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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGCTTGATGGTATTGTTCAGTTGACTGACAAGGATGAATGTGCATACCAGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcctgatctcagtttttcctcaatattgtaaaattgtagagaacgctgtgctgattggcagaaatccattggaagactttctgcagctctatctcagcatatgggatatttctttttacctgaatttgaatggaaactttggtggcttatgtccttaagaaatacttcgcag

Basic information

species Zea mays
transcript GRMZM2G060896_T04
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060896_T04 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g15550.1 (Oryza sativa), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAGTTGACTGACAAGGATGAATGTGCATACCAGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcctgatctcagtttttcctcaatattgtaaaattgtagagaacgctgtgctgattggcagaaatccattggaagactttctgcagctctatctcagcatatgggatatttctttttacctgaatttgaatggaaactttggtggcttatgtccttaagaaatact---tcgcag
||| |||||||||||||| ||||||||||| |||||||||||||| ||||||||||||||||||||||| || |||||||||||||||||||| || |||||| |    |   |     |||||  || ||    || |  || |   ||| || |  |||  | |   ||   ||||    | | |||  |  | | | ||  | |        ||| |  |||| |  ||   ||     | ||||||  || |||| |||  ||  |||    |  |||
TGTCCTTGATGGTATTGTCCAGTTGACTGATAAGGATGAATGTGCGTACCAGGAAATGATTACTCACCTTCCGCTTTGCTCAATTCCATCCCCAAAGAAAgtaaggactccattt---attttttttccat----tagaggtgaaattaacacttt--tgacagactcgaa---attg----attgtcttaaattat-tttcttcct--------tttatccttacttctatagaaaattttagtttggtcactaatgttctttggacctaccaaatttcag

upper sequence: GRMZM2G060896_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA04G41600.1 (Glycine max), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAGTTGACTGACAAGGATGAATGTGCATACCAGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtat-gcctcctgatctcagtttttcctcaatattgtaaaattgtagagaacgctgtgctgattggcagaaatccattggaagactttctgcagctctatctcagcatatgggatatttctttttacctgaatttgaatggaaactttggtggcttatgtccttaagaaatacttcgcag
||| |||||||| || ||||| |||||||| |||||||||||||| |||||||| |||||  |||| || || || || |||||||  ||||| ||||  |||  |||   |||||| |   |||      | || | |  || ||          |  ||| || |  | |   |    | || || || ||| |  |  | |  |     | || |                                                              
TGTACTTGATGGAATAGTTCAATTGACTGAGAAGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCTGTTCAATTCAGTCCCCCAAAACTgtaaagccatttgatctgatgatttt-----tgttctgagcttata----------ttatgactgtcgaata---aaaaaatgaattgcttcagtttcaatttaaaagtattgttact--------------------------------------------------------------

upper sequence: GRMZM2G060896_T04 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G13210.2 (Glycine max), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAGTTGACTGACAAGGATGAATGTGCATACCAGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtat-gcctcctgatctca--gtttttcctcaa----tattgtaaaattgtagagaacgctgtgctgattggcagaaatccattggaagactttctgcagctctatctcagcatatgggatatttctttttacctgaatttgaatggaaactttggtggcttatgtccttaagaaatacttcgcag
||| |||||||| || ||||| |||||||| | |||||||||||| |||||||| |||||  |||| || || || || |||||||  || || ||||| |||  | |   |||||  |   |||| | ||      |||  ||  | |||  |  |     |  | || |    |  | || |  || | | |     | ||                                                                                   
TGTACTTGATGGAATAGTTCAATTGACTGAGAGGGATGAATGTGCTTACCAGGAGATGATAGCTCATCTTCCCCTCTGTTCAATTCATTCGCCCAAAAATgtaaagtcatttgatccgatgattttgcttctgagcttatgttatgactgtcaaataaaaaatattaatcgcttcagtttcaatttaaaagtat----ggttcc----------------------------------------------------------------------------------

upper sequence: GRMZM2G060896_T04 (Zea mays), 5'ss of exon 5
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 5'ss of exon 5
TGTGCTTGATGGTATTGTTCAGTTGACTGACAAGGATGAATGTGCATACCAGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcctgatctcagtttttcctcaatattgtaaaattgtagagaacgctgtgctga-ttggcagaaatccattggaagactttctgcagctctatctcagcatatgggatatttctttttacctgaatttgaatggaaactttggtggcttatgtccttaagaaatacttcgcag
|||||||||||| |||||||||||||  || || ||||||||||| || ||||| |||||| ||||||| || ||||| ||||||  |||||| || | ||||      ||  |  ||    ||      |  |   |  ||||  |        |  ||| ||||   | |||  |   |  ||  | |  |  | |  |                                                                               
TGTGCTTGATGGCATTGTTCAGTTGAGCGAGAAAGATGAATGTGCCTATCAGGAGATGATTGCTCACCTTCCCCTTTGTTCAATTGAATCCCCCAAGAGAgtaatttcactatttccaagcattggagttttattccatgttgtcaatgttctccttttgacttggattatatctttctcacaaccatttttaatt-tgcc-------------------------------------------------------------------------------

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|19057826|gb|BM736493.1|BM736493
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|71305271|gb|DR788769.1|DR788769
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|87153794|gb|DY398583.1|DY398583
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|19057747|gb|BM736414.1|BM736414
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|19058302|gb|BM736969.1|BM736969
EST:     TGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: TGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|74240569|gb|DT648483.1|DT648483
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|6918561|gb|AW400091.1|AW400091
EST:     AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: AGGAAATGATTACTCACCTGCCACTTTGCTCAATTCCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
EST: gi|22490603|gb|BU050526.1|BU050526
EST:     CCATCCCCTAAAAAA                         GTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG
genomic: CCATCCCCTAAAAAAgtatgcctcc ... tacttcgcagGTTTTGGTTATTGGTGGTGGTGATGGAGGTGTACTTCGAGAGGTATCCAGG