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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccattacatgtttattttctccttctgcatgtcaaccttttcttctgacacttctaactcctgtacattctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGAGAACAATTTTGCAATCAGGATTTGTCCACCCTTAGAAAAAAACATCCTA

Basic information

species Zea mays
transcript GRMZM2G097987_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G097987_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g26080.1 (Oryza sativa), 3'ss of exon 6
-----gtccattacatgtttatt-ttctccttctgcatgtcaaccttttcttctgacacttctaactcctgtacattctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGAGAACAATTTTGCAATCAGGATTTGTCCACCCTTAGAAAAAAACATCCTA
        |  |||||  |  || || ||||| | |||||   || ||||||  ||||| |   ||||   || ||| | || |||||||||||||| ||| | ||||||||||| ||||||||  || ||||||||||||||||||||||  |||| ||||| || ||||| ||||   ||||||
gtcctcaactctacatcctccttgttttccttgtacatgttttccatttcttaggacacct---actcacata-attatgtgccagTTCTTTGGACTGAAGCAATCTTCATCACTGTCTGATTTTGTGCTTGCTGGAGAACAATTTTGCAACAAGGACTTGTCTACTCTTAGGAAAATGTATCCTA
















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|211150923|gb|FL213279.1|FL213279
EST:     AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAG                         TTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA
genomic: AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAGgtccattaca ... tctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA
EST: gi|32791174|gb|CD943410.1|CD943410
EST:     AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTATATTTTACATCAAAG                         TTCTTTGGACTTA
genomic: AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAGgtccattaca ... tctctgtcagTTCTTTGGACTTA
EST: gi|211150925|gb|FL213281.1|FL213281
EST:     AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAG                         TTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA
genomic: AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAGgtccattaca ... tctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA
EST: gi|211150924|gb|FL213280.1|FL213280
EST:     AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAG                         TTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA
genomic: AGCTGCGTGGATACTTCTTGGCAACTGAAAATTTCTATTTTACATCAAAGgtccattaca ... tctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgcatgtcaaccttttcttctgacacttctaactcctgtacattctctgtcagTTCTTTGGACTTAAGAAGTCTTCATCACTCTCTGATTTCATGTTTGCTGGAGAACAATTTTGCAATCAGGATTTGTCCACCCTTAGAAAAAAACATCCTA
                            ttctaac  putative branch site (score: 1)
                                            ttctctgtc  putative PPT
              ttttctt  TA-rich tract