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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaagtgccctaatattattttgggctcagtgtttggctctgttgtgttccatatttacatgatacttctctaaattgtgttacttatgtttaaatttaatttatgggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTTGTTGATGGTCTAGCTCTAAAGGCAGCGGATAGGCAGTCTTCTATAGAAC

Basic information

species Zea mays
transcript GRMZM2G064695_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064695_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g40830.1 (Oryza sativa), 3'ss of exon 6
----gttaagtgcc-ctaat-attattttgggctcagtgtttggctctgttgtgttccatatttacatgatacttctctaaattgtgttacttatgtttaaatttaatttatgggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTTGTTGATGGTCTAGCTCTAAAGGCAGCGGATAGGCAGTCTTCTATAGAAC
     |  | |||| ||||| | |||       |  |      ||  |||    |||   ||||   | ||  ||    |     |    | ||  || ||||  |||     ||| | ||||||||||||||||||||| || |||||||||||||| |||||||||||||||||||||||||| || | |||| |||| || || |||||||| |||||||
gtaaatctattgcctctaatcaatatccctctgttggcaac-agcattgtgtgcttctgcatttttttaattgtttctaatgaaatcgatcatacattgaaatgcaatgctctggattgccagGTTCCTATTGATGTATTCAAGGGAATCACAGATGATGATGCAGCTAAAGTTGTTGATGGTCTGGCACCAAAGACAGCTGACAGACAGTCTTCCATAGAAC

upper sequence: GRMZM2G064695_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT2G20420.1 (Arabidopsis thaliana), 3'ss of exon 6
gttaagtgccctaatattattttgggctcagtgtttggctctgttgtgttccatattta-catgatacttctctaaattgtgttacttatgtttaaatttaatttatgggaatac-cagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTTGTTGATGGTCTAGCTCTAAAGGCAGCGGATAGGCAGTCTTCTATAGAAC
              | ||| | |  | |  || |||||   | |  | | |  ||  || |||  |     |||   |  ||    || | |   |  | || | ||||   | |  |||| || ||||||||||||  ||||||||| ||||| ||||| ||||| ||||| |||||||| ||||  || || || || ||  |   ||| || ||||
------------gttgttactgtttgattcgtatttggtggtctgatctccagtaaatatcattctgagattctttctcatgcgggtt-tttgacacctcaagtcatggttttgcgtagGTACCAATTGATGTATTTGCAGGAATCACTGATGAAGATGCTGCTAAGGTTGTGGATGGTCTGGCTCCCAAAGCTGCTGACAGAAAAGATTCGATTGAAC

upper sequence: GRMZM2G064695_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv07s0005g03790.t01 (Vitis vinifera), 3'ss of exon 6
gttaagtgccctaatattattttgggctcagtgtttggctctgttgtgttccatatttacatgatacttctctaaattgtgttacttatgtttaaatttaatttatgggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTTGTTGATGGTCTAGCTCTAAAGGCAGCGGATAGGCAGTCTTCTATAGAAC
||||    ||| |||  | | ||    |||   |||| |  || | |        |||      |||     || ||||  |||     ||| |      ||||||      | ||||| ||||||||||| ||| ||||||| |||||||| ||||| ||||| ||||| |||||| | ||||  ||||  || |||||  |  |||| ||||| |
gttattgtccccaatgctttatt---ttcatgctttgacattgctattgagacagtttcttctttaccctgttatattg--ttaaaacagttgactcaccatttatttctg-atcagGTACCTATTGATGTTTTTCAAGGAATTACAGATGAAGATGCTGCTAAGGTTGTAGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGC

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|71760334|gb|DR958271.1|DR958271
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTA
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTA
EST: gi|149076126|gb|EE164711.2|EE164711
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|149094704|gb|EE180255.2|EE180255
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|148935326|gb|EC879367.2|EC879367
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAAGGA-TCACAGATGAGGATGCAGCTAAAGT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAA-GGAATCACAGATGAGGATGCAGCTAAAGT
EST: gi|13382325|gb|BG459000.1|BG459000
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|67017499|gb|CO446248.1|CO446248
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|91872808|gb|EB402765.1|EB402765
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|149017003|gb|EE154318.2|EE154318
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
EST: gi|76282776|gb|DV022344.1|DV022344
EST:     GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAG                         GTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT
genomic: GAACCAGTATTGAAGATCTTGCGGAGAAGTATCCTGATATGATTATTAAGgttaagtgcc ... ggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatacttctctaaattgtgttacttatgtttaaatttaatttatgggaataccagGTTCCTATTGATGTATTTAAAGGAATCACAGATGAGGATGCAGCTAAAGTTGTTGATGGTCTAGCTCTAAAGGCAGCGGATAGGCAGTCTTCTATAGAAC
        tctaaattgtgttact  TA-rich tract