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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaattcatacttttagtgaacatatgagcc...

Basic information

species Zea mays
transcript GRMZM2G149662_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os01g64780.4 (Oryza sativa), 5'ss of exon 4
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaat-tcata--cttttagtga-acatatgagcc--------------------------------------------------------
||||||| || || ||||| ||||||||||| ||||||||||||||||| ||||||||||||||||||||||| |||||||||||||| || ||||||||| || || ||       || | |   ||  |  | | | |||    | | |     |||  |||||       |||||  | |    ||  |  ||||| ||                                                        
ATCAAAACACAACAGCTTTTAAAGAAGTTGCGATAATTCGTCATCCACGTATTGGTGAATATGCATTTGGATTTATAACATCAACTGTTGTTCTTCAGgtaattcatgtagggttctatatggaataaatatgagttagatta---acaaaaatctgttattgaggtgcttcgtcatagacatgccatgccatgtatgatccgtaataggtgcaactgtgcttgttcttatgttagtcttgtttgtgttctatggcag

upper sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G15360.2 (Glycine max), 5'ss of exon 5
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgatata-----tatagaaatgtt-gctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaattcatacttttagtgaacatatgagcc
|||||||||| ||||| || ||||| || ||||| || ||||| || ||  ||||||||||||| |||||||| || |||||||||||    || |||||||    ||       |||| |  |||| ||  |        |  | | || | | ||      |  |  |   ||  |  | | |||   | |  || |     
ATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCGTTTGGATTTATTACATCAACTGTTACTCTACAGgtaccctgtactgtcgctataaatttgtttgccaaccttgtgatggtttcctttctttattttgataac-aaattaacttcaacaatttctattattattt-----

upper sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA04G39490.1 (Glycine max), 5'ss of exon 5
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtact---tgatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaattcatacttttagtgaacatatgagcc
|||||||||| ||||| || ||||| || ||||| || ||||| || ||  ||||||||||||||||||| || || |||||||||||  | || ||||||||   |  | |   || |||| ||| | |  ||    | || || |||  ||   | |  ||    |   ||   ||||     | |  ||||   |   
ATCAAAATACCACTGCCTTTAAAGAGGTAGCAATTATCCGTCACCCGCGTGTTGGTGAATATGCATTTGGCTTTATTACATCAACTGTTATTCTACAGgtactgtgtagtgtcactataaat-ttgtttaccaacctcttat-ttatattgattaaatatgtgtgatgagcaaccacataagagaacttgacatcacact-

upper sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
lower sequence: AT1G43130.1 (Arabidopsis thaliana), 5'ss of exon 5
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaattcatacttttagtgaacatatgagcc
| ||||| || ||||| || ||||| || ||||| || ||||| || || ||||||||||| ||||||||||| || |||||| | |||   ||||||||     |  |||  || ||     |||  | ||||  || | |    | ||  |  | |||||    ||   ||  |  || | || ||||        
ACCAAAACACTACTGCCTTTAAAGAGGTAGCAATCATCCGTCACCCTCGTATTGGTGAATACGCATTTGGATTTATTACATCATCGGTGACACTTCAGgtc----agttattcagcaacaaaactg--gtaaaaccca-agtaagcaaattagttacttgctct--catgctttttttttgttgt-aacag-------

upper sequence: GRMZM2G149662_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv07s0031g02010.t01 (Vitis vinifera), 5'ss of exon 5
ATCAAAATACGACTGCTTTCAAAGAAGTTGCAATAATTCGTCATCCACGAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtactt---gatatatatagaaatgttgctgaagaaaaattcatattctatatataggaaagttgctgaggcaaaattcatacttttagtgaacatatgagcc
| |||||||| |||||||| ||||| || || || || |||||||||||  ||||||||||||||||||| || || |||||||| ||  ||||||||||||||   |||| ||||        | ||  | |    ||||   | | |    | |  ||||   |||| |   ||  | |||||  |   |||||| |  
ACCAAAATACCACTGCTTTTAAAGAGGTAGCTATCATCCGTCATCCACGTGTTGGTGAATATGCATTTGGTTTTATTACATCAACAGTAATCCTTCAGgtacttttagata-atatgatttctcttcttgaaatttgttcaagctttttgctcaagtcagtttgagagg-atttttgttcctttttttattcatatgtga-

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|78081652|gb|DV510064.1|DV510064
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACCAAGGCGATGAAGAACT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACT
EST: gi|76288284|gb|DV027852.1|DV027852
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|91053026|gb|EB163444.1|EB163444
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|148956825|gb|EC902729.2|EC902729
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|71771810|gb|DR969747.1|DR969747
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|5901280|gb|AW042380.1|AW042380
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACGGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|88756505|gb|DY540646.1|DY540646
EST:     AATTGGTGAATATGCATTTGGATTTATAACATCAACTGTGGTCCTTTCC-                         ACTGACCAAGGCGATGAAAAACTGTGTAGTGTGTATGTGCCACCAA-TCA
genomic: AATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTT-CAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCA
EST: gi|71440103|gb|DR821153.1|DR821153
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|50331144|gb|CO526270.1|CO526270
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|78077279|gb|DV505713.1|DV505713
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|71772305|gb|DR970241.1|DR970241
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
EST: gi|71446982|gb|DR828032.1|DR828032
EST:     GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAG                         ACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT
genomic: GAATTGGTGAATATGCATTTGGATTCATAACATCAACTGTGGTCCTTCAGgtacttgata ... ctttttgcagACTGACAAAGGCGATGAAGAACTGTGTAGTGTGTATGTGCCAACAAATCAT