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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgcgtatgctgcaactagttttccttaccttctccaaaccttattctctggatttggtgaagtaaaatgaagaatgatgagtctactctgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTA

Basic information

species Zea mays
transcript GRMZM2G104377_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104377_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g01060.2 (Oryza sativa), 3'ss of exon 7
--gat-gcgtatgctgcaactagttttccttaccttctccaaac-cttattctctggatttggtgaagtaaaatgaagaatgatgagtctactctgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTA
  |||  |  ||| | |||    ||||| ||| ||||   ||    | ||  |||   ||| ||||  ||| ||  | |||  |   | |  |    | |||||||||||||||| |||||||| || || ||||||||||||||||||||| |  |||||||||||||||||||| |||||||||||||||| || |||||||
ctgatcacacatgatacaatggattttctttatcttcctgaattgttcatagtctaatttttgtgatttaacat--ataattctacttttgtt--acttcatagGCAGCACATCAGGAGAGATCCACTTTTGTATCTTCTTTATTGCCTCTTTTGACAGAATATAACCTTCAGCCTTCTGTTCTTGATGCTCAATCAATTGTTA

upper sequence: GRMZM2G104377_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA10G31880.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------gatgcgtatg-ctgcaactagttttccttacct--tctccaa-------accttattctctg--gatttggtgaagtaaaatgaagaatgatgagtctactctgttccat-agGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTA
                                                 |  | |||  ||| |  ||||||  | |     ||||||        | ||| |||| |   |  ||   |||  ||  |  |   |  ||  | | || | |    | |||  ||||| ||||| ||||| ||||| || || |||||  ||||||||||  |||||||   ||| ||||||||||||| |||||| || || |||||||
gttatttttcctacttttttcctcattgttggtgtggtgtgtgttaaattttgcatggttgctataagtttttttcaatgagtctccatggacagtaacttgttctgttatgtgtttcagaatcaatttttaagtttttgcattttctttttcttgtcagGATGCACAGCAAGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTA

upper sequence: GRMZM2G104377_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA20G35770.1 (Glycine max), 3'ss of exon 9
------------------------------------------------------------gatgcgtatgctgcaactagttttccttaccttctccaaaccttattctctggatttggtgaagtaaaatgaagaatgatgagtctactctgttccat-agGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTA
                                                             ||  ||||  | |||  ||| | | |   |      ||   || |  | ||  |||   |||  ||  |  |   |  ||  | | || | |    | |||  ||||| ||||| ||||| ||||| || || |||||  ||||||||||  |||||||   ||| ||||||||||||| |||||| || || |||||||
gttatttttcctacttttttcctcactattagtgtggtgtgttaaattttgcatggttgctataagtatatttcaatgagtctccatggacagt---aactgttctgttttgtgtttca-gaatcaatttttaagtttttgcattttctttttctggtcagGATGCACAGCAAGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTA

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|22490477|gb|BU050400.1|BU050400
EST:     ACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCATTGCAG                         GCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA
genomic: ACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCATTGCAGgtaatgtttt ... tgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA
EST: gi|19058176|gb|BM736843.1|BM736843
EST:     ACAGACAGGATATTATCGAAGAAAACATCCGGCTTACATATGCATTGCAG                         GCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA
genomic: ACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCATTGCAGgtaatgtttt ... tgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA
EST: gi|32930925|gb|CF035737.1|CF035737
EST:     ACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCATTGCAG                         GCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA
genomic: ACAGACAGGATATTATCGAAGAAAACATCCGTCTTACATATGCATTGCAGgtaatgtttt ... tgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctctggatttggtgaagtaaaatgaagaatgatgagtctactctgttccatagGCAGCACATCAAGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTA
                                          ctctgttcc  CT-rich tract
                aagtaaaat  TA-rich tract