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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttctgagttttgttacctgagtttgaaaatctatctaattctaatacctcataggacactaggtctctgcttcatgcattagcagaactcaata...

Basic information

species Zea mays
transcript GRMZM2G124919_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 5'ss of exon 5
TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttctgagt---tttgttacctgagtttgaaaatct-----atctaattctaatacctcataggacactaggtctctgcttcatgcattagcagaactcaata
||| |||||||| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |||||||| || |   |   |||  ||| | |  ||       |     ||  |||||||  | || ||    |  | |||  |  |   |||| ||| || ||||     
TGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTACAATTGATGCACAGgtcagcttttatatatgttttctactttaacttagggcattggagcataaaattctagaatctgatt---ctgtgggtacccccacaatgctttaacaaaact-----

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G01200.1 (Glycine max), 5'ss of exon 5
TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtc---------aggttctgagttttgttacctgagtttgaaaatctat--ctaa-----ttctaatacctcataggacactaggtctctgcttcatgcattagcagaactcaata-----
||| |||  |  ||| ||||| |||||||| || || |||||||||||||| |||||||||||||| ||||| || ||||| || || |||||||| |||||          || ||||   |  |  | | | || ||     | | |  ||||     ||||   || | || | ||||||  |   |  || || | | | |   |||   |      
TGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCACCATTGATGCACAGgtattttcattaagtttctatatcattattcattagcttagctttttgtgtctaagttctttctttcacttgatggaacactaattaattaattaatac-taaaccatacttgtttttcag

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G01210.4 (Glycine max), 5'ss of exon 5
TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtc---------aggttctgagttttgttacctgagtttgaaaatctat--ctaa-----ttctaatacctcataggacactaggtctctgcttcatgcattagcagaactcaata-----
||| ||||||||||| ||||| ||||||||||| || |||||||||||||| |||||||||||||| ||||| || ||||| || || |||||||| |||||          || ||||   |  |  | | | || ||     | | |  ||||     ||||   || | || | ||||||  |   |  || || | | | |   |||   |      
TGTTTGGTTCCCACAACCAGCTCCAAAGGATCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGTACCACCATTGATGCACAGgtattttcattaagtttctatatcattattcattagcttagctttttgtgtctaagttctttctttcacttgatggaacactaattaattaattaatac-taaaccatacttgtttttcag

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA13G23790.3 (Glycine max), 5'ss of exon 6
TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttctgagttttgttacctgagtttgaaaatct--atctaa-ttctaatacctcataggacactaggtctctgcttcatgcattagcagaactcaata--
||| ||||||||||||||||| ||||||||||| || ||||| |||||||| |||||||||||||| ||||| || ||||| || || || ||||| |||||    ||   | || | |  |   || |||    | |  | |||| || |   || |  | | ||||||        | | | | || | |  ||||   |   
TGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCACCATAGATGCACAGgt--attttaaatttctatagcactagcttgcccttttttacctaagttatttcacttggtggaacactaa-------cattaagaataaaccaaacttgttcag

upper sequence: GRMZM2G049811_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv14s0066g01320.t01 (Vitis vinifera), 5'ss of exon 5
TGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgt---caggttctgagttttgttacctgagtttgaaaatctatctaattctaatac-ctcataggacactaggtctctgcttcatgcattagcagaactcaata
||| ||||  ||||||||||| || ||||| || || ||||| |||||||| ||||| || ||||||||||| || ||||| || || |||||||| |||||   || |||   | |||| ||  |      |     | | | |  || |   |  ||  ||   ||  |  |  |      |||    |  |     ||   
TGTTTGGTATCCACAGCCAGCCCCCAAGGACCATCCATGGCGGTACATGCCAAACCAAGCTATGACCCCTCATATTTCTGGCACCACCATTGATGCACAGgtacccaagtttctacttttcttctccttcccttcccgtatttttgcttttctcatgcttgtaactcataaaatggcca----atgggacaatattgtgcag--

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|31354982|gb|CD439339.1|CD439339
EST:     CAAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAG                         CTGCGGTATGCGGATGGTGTGAGGGACATGCTG
genomic: CTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttct ... attcatacagCTGCGGTATGCGGATGGTGTGAGGGACATGCTG
EST: gi|32849118|gb|CD988799.1|CD988799
EST:     CAAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAG                         CTGCGGTATGCGGATGGTGTGAGGGACATGCTGAATAGGTATTTCAAGGGC
genomic: CTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttct ... attcatacagCTGCGGTATGCGGATGGTGTGAGGGACATGCTGGATAGGTATTTCAAAGGC
EST: gi|32916182|gb|CF020994.1|CF020994
EST:     CAAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAG                         CTGCGGTATGCGGATGGTGTGAGGGACATGCT
genomic: CTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttct ... attcatacagCTGCGGTATGCGGATGGTGTGAGGGACATGCT
EST: gi|32863793|gb|CF003475.1|CF003475
EST:     CAAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAG                         CTGCGGTATGCGGATGGTGTGAGGGACATGCTGAATAGGTATTTCAAGGGC
genomic: CTAACCATGCCATGACCCCTCACATCTCTGGGACTACAATTGATGCGCAGgtcaggttct ... attcatacagCTGCGGTATGCGGATGGTGTGAGGGACATGCTGGATAGGTATTTCAAAGGC