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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttctattctatcagcagaagtaattctgcagcatttttctcctttcatctcacctctctgacagttgctgaatcacgctctgtgctgcattctttcagAGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCGCAAG

Basic information

species Zea mays
transcript GRMZM2G019986_T04
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019986_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g52370.2 (Oryza sativa), 3'ss of exon 1
tgttctattctatcagcagaagtaattctgcagcatttt--tctcctttcatctcacctctctgacagttgctgaatcacgctc--tgtgctgcattctt---tcagAGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCGCAAG
      | |   |||  ||||    | | |||  |||||  | || ||| | || |||  |  ||||||  |  |||   |||   | | ||||||| ||   |||||| || || ||||||||||| ||||||||||||||||||||||||||||| ||||
-----caatagctcaagagaaacc-tgcagcatgattttattgtcatttgagcttaccatttcgacagtgacc-aatggagctacatatactgcatttttttttcagAGCCTGGATCTTTCAAGGATTGATCGGATCATCCGGCGCTCCCTTGGATCACAAG
















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|148950927|gb|EC896559.2|EC896559
EST:     GGGACGATCTCTCGCCCGAGGACCGAGAGCTCCTCGTCCGGGACATCGAG                         AGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCG
genomic: GGGACGATCTCTCGCCCGAGGACCGAGAGCTCCTCGTCCGGGACATCGAGgtgagcagct ... attctttcagAGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCG
EST: gi|211406605|gb|FL094201.1|FL094201
EST:     GGGACGATCTCTCGCCCGAGGACCGAGAGCTCCTCGTCCGGGACATCGAG                         AGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCG
genomic: GGGACGATCTCTCGCCCGAGGACCGAGAGCTCCTCGTCCGGGACATCGAGgtgagcagct ... attctttcagAGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatctcacctctctgacagttgctgaatcacgctctgtgctgcattctttcagAGTCTAGACCTTTCAAGGATCGATCGGATCATCCGGCGCTCCCTTGGATCGCAAG
            ctctgac  putative branch site (score: 3)
                                            cattctttc  putative PPT
                                             attcttt  TA-rich tract