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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattcttaattttcttttttcttaagggtatgttaacttgttaagcaatcaatgtcgaacacggtgatctgccttttcatttccggagcattggagatgctttcaaatatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG

Basic information

species Zea mays
transcript GRMZM2G047564_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G047564_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g39344.1 (Oryza sativa), 3'ss of exon 2
gtgattcttaattttcttttttcttaagggtatgttaacttgttaagcaatcaatgtcgaacacggtgatctg--ccttttcatttccggagcattggagatgctttcaaatatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
        | ||   || | |  ||       | | ||   | |  ||  |  |  | ||||| | || | ||  |||||| ||||||||||||||||||||| || |||||| ||||||||  |||||||||||||||||||||||| ||||| |  ||||| ||||| ||||| |  ||||||||||||||||||
-------gtgatcacctctctgtttttattcgt-tgaaaaagctgggccttgtacattgaacatgctgttttgcgcctttttatttccggagcattggagatgtttgcaaataagattcatgaccaatgcagGGATGGATATTAAGGGTGTTGCAGCAGAAATTCAAAAGGACAAGAGCACACCACTTGTGCAAAAG

upper sequence: GRMZM2G047564_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G04460.1 (Glycine max), 3'ss of exon 2
-------------------------------------------gtgattcttaattttcttttttcttaagggtat-----gttaacttgttaagcaatcaatgtcgaacacggtgatctgccttttcatttccggagcattggagatgctttcaaa--tatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
                                            | || |  |      || |  |||||    ||      ||| ||| ||  |||   | |   |    || |     |   |||  |||  |     | ||  | | ||| | |   |  |||  ||| ||||||||| ||||||||||| |||||||  |  ||||||||||| |||||||| || ||  | ||||| |||
gtatgactgaggcattgagggaaataaataatttattaatcttttaatgcaaagcgcgtttctagcttaaatagattaaaaattagcttcttttgcagata-ttctgttttcgatttgaggttatttggtttttgagtgctaggtaaggttttgagagtcaccattggtggtcaatgcagGTATGGATATTAAAGGGGTTGTTGCTGAAATACAAAAGGACAAAAACACTCCTTTAGTGCAGAAG

upper sequence: GRMZM2G047564_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA05G35260.1 (Glycine max), 3'ss of exon 2
---------------------------gtgattc-ttaattttcttttttcttaagggtatgt----taacttgttaagcaatcaatgtcgaacacgg-tgatctgccttt---------tcattt---ccggagcattggagatgctttcaaa---tatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
                            | |||  ||||| || |  |       | || |||    ||| | | | |  ||| |   ||     | | |  ||||  ||          | ||||      |||   | |  | | |||  |     |  |||  ||| ||||||||| ||||||||||| |||||||  |  ||||||||||| |||||||| || ||  | ||||| |||
gtatgattgaggcattgggggaaatacataatttattaatcttttaatacaacgtgcgtttgtagcctaaatagattaaaaattagcttcttttgcagatattctgttttcgatttgaggttatttggttttgagtgctaggtaaggttttgagagtcaccattggtggtcaatgcagGTATGGATATTAAAGGGGTTGTTGCTGAAATACAAAAGGACAAAAACACTCCTTTAGTGCAGAAG

upper sequence: GRMZM2G047564_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT4G13360.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgattcttaattttcttttttcttaagggtatgttaacttgttaagcaatcaatgtcgaacacggtgat-ctgccttttcatttccggagcat---tggagatgctttcaaatatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
|| |||   | |||| || ||| ||| | | | | ||   ||||| | |     | ||    |   |||   ||  | ||| |||  | ||  |   | |   ||  |    |||||| |  ||     |||||||||||||||||| || ||||| |  ||||| ||||| |||||||| ||||| ||||||||||||
gtaattgcaagttttgttcttt-ttatgtggaagcta---tgttatgtagattgtttcatttaaattgaaattgtttgttcgtttgggaagtgtgttttggagtgactatctatatgaatggtg-----tgcagGGATGGATATTAAAGGAGTTGCTGCAGAAATCCAAAAGGACAAAAACACACCTCTTGTGCAAAAG

upper sequence: GRMZM2G047564_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv11s0016g04290.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------------------------------------gtgattcttaattttcttttttcttaagggtatgttaacttgttaagcaatc-aatgtc----gaacacggtgatctgccttttcatt-tccggagcattggagatgctttcaaat--atgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
                                                               ||    ||  || |  |||  | | ||  |   ||   || ||    |||| ||| |      || |   ||   |    |||  |  | | |||  || |  | | |||  |    |  |||  |||| |||||||| |||||||||||||||||||  |  ||||| ||||| |||||||  ||||| |||||||| |||
gtaacatgaagaaaaatagaactcctctgttttccctgttaaataatgttttcatgtattaaatgtactttttttgttgtttagcatgagcttcaattttttttttttaaaatctaattttttaaaaaaattttggggtaatgttttgtaattctgagtgttaggtaagattttgagggaaccatttgtggaaaatgcagGAATGGATATTAAGGGGGTTGTTGCTGAAATTCAAAAGGACAAAACTACACCTCTTGTGCAGAAG

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|78084643|gb|DV513036.1|DV513036
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|37423415|gb|CF649435.1|CF649435
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|148967922|gb|EE019232.2|EE019232
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACCAAAAGAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGAC
EST: gi|101384149|gb|EB814119.1|EB814119
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGATATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|78083153|gb|DV511546.1|DV511546
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAA-CAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|76280674|gb|DV020242.1|DV020242
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|91873504|gb|EB403461.1|EB403461
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|78078185|gb|DV506600.1|DV506600
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|89249262|gb|DY621048.1|DY621048
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAACAACAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|211180617|gb|FL196784.1|FL196784
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGAC
EST: gi|148940990|gb|EC885841.2|EC885841
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|91052341|gb|EB162759.1|EB162759
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|101390505|gb|EB817187.1|EB817187
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|50330060|gb|CO525186.1|CO525186
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|211180618|gb|FL196785.1|FL196785
EST:     TGTCTAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAAT
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAAT
EST: gi|91878455|gb|EB408412.1|EB408412
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|148940383|gb|EC885176.2|EC885176
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|211180619|gb|FL196786.1|FL196786
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAA
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAA
EST: gi|149097995|gb|EE183940.2|EE183940
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|88757308|gb|DY541449.1|DY541449
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|71331741|gb|DR802727.1|DR802727
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC
EST: gi|78091724|gb|DV520098.1|DV520098
EST:     TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAG                         GGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACNNNNNNNCAC
genomic: TGTCAAGTGTATTCTTGTGGAAAGCAGCTCTTCTCGTGCCTTCTCAGCAGgtgattctta ... gacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcatttccggagcattggagatgctttcaaatatgattcatggacaatgcagGGATGGATATTAAGGGGGTTGCCGTGGAAATACAAAAAGACAAAAAAACACCACTTGTGCAAAAG
                           tttcaaatatgatt  TA-rich tract