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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtgttctttgctaataaatactacacttgtgttacttgtacataaaatggctggcatacatctgcagttcctttgttcttaatttcttttgctcctacattctggttctgggtaaacttatataacgtaatctgaaaatgccctatttgtttctcaaatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAGGGAGTGTGACGAAAGTGGGTTCCACACTCACCGAGAGACAACCAACGGC

Basic information

species Zea mays
transcript GRMZM2G013625_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013625_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g47262.2 (Oryza sativa), 3'ss of exon 8
gcaagtgttctttgctaataaatactacacttgtgttacttgtacataaaatggctggcatacatctgcagttcctttgttcttaatttcttttgctcctacattctggttctgggtaaacttatataacgtaatctgaaaatgccctatttgtttctcaaatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAGGGAGTGTGACGAAAGTGGGTTCCACACTCACCGAGAGACAACCAACGGC
                                                || |         ||   || |     |   ||  | ||| ||||||||  |   |  ||   |  |  ||  |  ||| || ||   ||||| |||   || || | |||||||  || ||||  |  ||||||||||||||||| || || |||||||||| ||| |||||||||||    ||||||||||||||| | ||||| ||||||||  |||||
----------------------------------------------gcaagtattctatggacggttgtacagtttcaatttattattccttttgcttttg-gtggtgccccctgccaatttattatcacttacagtgaaa-tgc---atatgct-ctcaaatcctttagGAACTGTGGAATATTCAGGCTGACAGACCCAGGAGGGATGGGTGTGCTTAGGGAGTGCAGTGAAAGTGGGTTCCACGCCCACCGGGAGACAACGGACGGC
















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|78086947|gb|DV515340.1|DV515340
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|71426234|gb|DR807284.1|DR807284
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|71328261|gb|DR800761.1|DR800761
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|32795556|gb|CD947792.1|CD947792
EST:     GATCCCACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: GATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|32795393|gb|CD947629.1|CD947629
EST:     GATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: GATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|76014394|gb|DT941564.1|DT941564
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|18168836|gb|BM338676.1|BM338676
EST:     GGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: GGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|78115431|gb|DV533819.1|DV533819
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
EST: gi|71767635|gb|DR965572.1|DR965572
EST:     TGTTACCAGAGGCTGTTGTCA-TTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAA
genomic: TGTTACCAGAGGCTGTTG-CAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAA
EST: gi|37375435|gb|CF624155.1|CF624155
EST:     ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAG                         GAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG
genomic: ATGTTACCAGAGGCTGTTGCAATTGTGGTCGCACCCACAGATCCAACCAGgcaagtgttc ... aatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaacttatataacgtaatctgaaaatgccctatttgtttctcaaatttttcagGAGTTACGGAATATTCAGGCTGACTGAACCTGGAGGGATGGATGTTCTTAGGGAGTGTGACGAAAGTGGGTTCCACACTCACCGAGAGACAACCAACGGC
        atataac  putative branch site (score: 3)
                                               tttttc  putative PPT
      ttatataacgtaat  TA-rich tract