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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcgctcttgattccgagcgcggtgtgcagctgtgtctggctgttcgctgcttcgcgtccttggtcctgatccgacggccgtgttcgattccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGTACAGCCTCGCCGAGCTCCGGGTGGCCACCGACGGCTTCGCCACCGACCG

Basic information

species Zea mays
transcript GRMZM2G121826_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121826_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g61010.1 (Oryza sativa), 3'ss of exon 1
ttcgctcttgattccgagcgcgg-tgtgcagctgtgtctggctgttcgctgcttcgcgtccttggtcctgatccgacggccgtgttcgattccct----gtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGTACAGCCTCGCCGAGCTCCGGGTGGCCACCGACGGCTTCGCCACCGACCG
     |      ||   ||| |  |  |  | ||  || | | |  ||| |    || |  ||||| |||||||||      |||  | ||   |    |||||||||||||||||||||  || |||||||||||||||||||||||||||||||||||||||| |||||| |||||||| |||||||| ||| |  |||| ||
---attgcgacctcttcgcgagaatccgtggttgattccgac-gcgcgc-gtcgtgcttttttggtgctgatccgagctatctgtgtggttttgttgacgtgcagAGAATGGCGCCGCCGCGGACGACGGCAGCGGCGTGCCGGTGTTCGCCGAGTACAGCCTCGACGAGCTACGGGTGGCGACCGACGGGTTCTCTCCCGAGCG
















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|211419062|gb|FL425552.1|FL425552
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|149103589|gb|EE288989.2|EE288989
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|71772711|gb|DR970638.1|DR970638
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|71302365|gb|DR787300.1|DR787300
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|50338612|gb|CO533738.1|CO533738
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|91055451|gb|EB165869.1|EB165869
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211284190|gb|FL390123.1|FL390123
EST:     CAAGCTCTCCGCCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|71436499|gb|DR817549.1|DR817549
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211493009|gb|FL369794.1|FL369794
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|67034938|gb|CO463471.1|CO463471
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAACGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|149012049|gb|EE042465.2|EE042465
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCCCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211317028|gb|FL376020.1|FL376020
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|149102733|gb|EE188271.2|EE188271
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211227820|gb|FL399533.1|FL399533
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|9255138|gb|BE345606.1|BE345606
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211332705|gb|FL418379.1|FL418379
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|71327655|gb|DR800438.1|DR800438
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|71299876|gb|DR785964.1|DR785964
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|148982427|gb|EE028311.2|EE028311
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|149036971|gb|EE155209.2|EE155209
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|211443081|gb|FL371156.1|FL371156
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
EST: gi|148945740|gb|EC891020.2|EC891020
EST:     CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCG                         AGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT
genomic: CAAGCTCTCCGTCTGCTGGTGGCCTCCCCGCTTCAAATCGCCGATGCTCGgtacgcgcct ... ccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctgcttcgcgtccttggtcctgatccgacggccgtgttcgattccctgtgcagAGAATGGCGCCGCCGAAGATGACGGCAGCGGCGTGCCGGTGTTCGCCGAGTACAGCCTCGCCGAGCTCCGGGTGGCCACCGACGGCTTCGCCACCGACCG
                   tcctgat  putative branch site (score: 3)
                                           ttccctgt  putative PPT