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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag

Basic information

species Zea mays
transcript GRMZM2G069198_T04
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os06g46310.1 (Oryza sativa), 5'ss of exon 3
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
||||| |||||||||||| |||| |||||||||||||| |||||||| ||||| ||||| ||||||||||||||||| ||||||||    |||||   | |||     |  | | ||||||||  |         | ||   ||     | | | | | |      ||||||||
AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagctggatttgttgttcactcctattaaatgagtattcac---------agtgatcatgaccaaaagaatctct----catcttgcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA15G00590.1 (Glycine max), 5'ss of exon 2
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcac--ttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
|  |  || ||||| || |||||  ||||||| |||||||| ||||| || || ||||||||||| ||||| |||||||||||||  |    |||||   ||||||||  |  | |   || |  ||  || |    || || || |  |   |   || |     |   | ||||
AGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACTgtaagaacacactattcatgattttcttctgtaatga--aaggaaatctatttctgacatggtatacttatggta---ttctaatgataattggcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA13G44710.1 (Glycine max), 5'ss of exon 1
---AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcac--ttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
   |  || || ||||| || |||||  ||||||| |||||||| ||||| || || ||||||||||| ||||| |||||||||||||  |    |||||   ||||||||  |  | |  |   || |   |  |    |  || || |  |   |   || ||    |  || ||||
CAGAGGAAAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACTgtaagaacacactattcatgattttcttctgtaatgaaaggaaatctatttgac----acggtatacttatggta---ttcttatgataactggcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G02680.1 (Glycine max), 5'ss of exon 1
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggat--tcacttttcttcgattctcattgag-tatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
| ||   | ||||| ||| ||||  ||||| | || ||||||||||| || || ||||||||||| || || |||||||||||||| |     |  |||||||  |  ||     |  ||  ||| | ||   |||  ||    |  |  |   |   ||||     || |||||||
ACAACAGGCTGGAAAAACCTATTTGCATACGTGGGACCTGGATTTCTAGTTTCCATTGCATATATCGACCCGGGAAACTgtaagatcacttattcatcactttcttctgaaagaaaaggaaatatattcccaacatagat---atgattattgta---ttttcaccttgacttgcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G23320.1 (Glycine max), 5'ss of exon 3
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggat--tcacttttcttcgattctcattgag-tatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
| ||  || ||||| ||||||||  ||||||| |||||||||||||| || || ||||||||||| || || |||||||||||||| |     |  |||||||  |  ||     |  ||  ||| | |||  |||  |     ||| |||  |  ||||||     || |||||||
AGAACAAGCTGGAAAAACTTATTTGCATACATTGGGCCTGGATTTCTTGTTTCCATTGCATATATCGACCCAGGAAACTgtaagatcatttattcatcactttattctgaaataaaaggaaatatattcctgacataga-----tatgcttatcgtatttttcacaatgacttgcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 5'ss of exon 2
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttc-gattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
|| || || |||||||| || ||  | ||| |||| ||||| ||||| || ||||| |||||||||||||||||||||||||||   |      || ||||| ||   ||  ||  | |  ||||    |  ||  ||| |   ||||||         ||  |||||  |||||
AAGAAGAGCTGGAAGAATTTCTTTGCTTACTTAGGCCCTGGTTTTCTTGTTTCAATCGCATATATTGATCCTGGAAACTgtaagcacattactctctctttttttttaataatctgtaaagatttgagatg-attcattcttgtttcttc---------ttcctgtgttctgcag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 5'ss of exon 2
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttcgattctcattgagtatttcccttccatctattg-tgtattcttcacaaattttttggtgt-gtcttgcag
||||| || ||||| ||||| ||||||||| |||| ||||||||||| ||||||||||| || ||||||||||||||||||||||||          || ||  |  ||        ||| |  | ||| |    |  |    |  ||   ||  ||| ||| ||| ||  | |||
AAAAAGAGCTGGAAAAACTTCTTCTCATACTTAGGCCCTGGATTTCTTGTCTCAATTGCTTACATTGATCCTGGAAACTgtaagatt----------ctctttgtaaataaatga-aagtgtaacacttacgcagacagacacaagctatgcatttttgttgttgttgttgtacag

upper sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 5'ss of exon 3
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag
|  || || ||||| ||||||||  |||| || || ||||| ||||| || || ||||||||||||||||||||||| ||||||| | |    |     || |||   ||   | |    | | | |||||    ||| ||   || ||  | ||||| || |  | |||||||
AGGAAAAGCTGGAAAAACTTATTTGCATATATGGGTCCTGGGTTTCTTGTGTCTATTGCATATATTGATCCTGGAAATTgtaagactgagacttcttagttcctttttttactactataaaatgctcttcc--taattatgccctcatc-tatattttgtgat-cgccttgcag

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|211420188|gb|FL124226.1|FL124226
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATAT-T-GATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|211049303|gb|FL092984.1|FL092984
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|211420191|gb|FL124229.1|FL124229
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|211420190|gb|FL124228.1|FL124228
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAG
EST: gi|88757771|gb|DY541912.1|DY541912
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|93014188|gb|EB639708.1|EB639708
EST:     CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT                         TTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaa ... tgtcttgcagTTGAGACGGATCTACAGGCTGGAGCACAGTACAAATATGAG