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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTCTTGCCCCCAAACTATATCACATGGAGATAGCTCTAGGTCACTATAAGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtttatctatttatttattggtgcaatcagttttctgaaaatatgattagttggttttttaaggcacttagctggaagtatgatccatagttc...

Basic information

species Oryza sativa
transcript LOC_Os06g12630.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g12630.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G826194_T02 (Zea mays), 5'ss of exon 5
CTCTCTTGCCCCCAAACTATATCACATGGAGATAGCTCTAGGTCACTATAAGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtttat---ctatttatttattggtgcaatcagttttctgaaaatatgattagttggttttttaaggcacttagctgga-agtatgatccatagttc---
|||||| |  || ||||||||||||||||||||| |||| || ||||| |||||||||||||||||||||||||||||  |||| |||| ||||||||||||||  | |  ||   |||   | | ||   ||   | |  ||| ||      | |||||||  || ||  ||| |    | |  | |||||    |||| |     
CTCTCTGGGTCCTAAACTATATCACATGGAGATAACTCTGGGCCACTACAAGAATTGGTCTGTTCCAGATTCACTTTCTTATGTAAAAACATATATGAAGgtatg-tatccatgtcctacacaatgatctttgagcttatctttttgg-----taattagttt-ttattggaggaagaaggttccatagtattgcacataatgtttg
















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|66917488|gb|CX104336.1|CX104336
EST:     TGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: TGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|86533872|gb|CI174078.1|CI174078
EST:     AGAATTGGTCTGTTCCAGATTCACTCTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|88985497|gb|CI003000.1|CI003000
EST:     AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|5005315|gb|AU070477.1|AU070477
EST:     AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|88250367|gb|CI348597.1|CI348597
EST:     AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|86494994|gb|CI137627.1|CI137627
EST:     TCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: TCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|86413068|gb|CI067473.1|CI067473
EST:     AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
EST: gi|86826938|gb|CI268819.1|CI268819
EST:     AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAG                         ACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT
genomic: AGAATTGGTCTGTTCCAGATTCACTTTCACATGTGAAAAAATATATGAAGgtatactgtt ... tgaatcgcagACTATCTTTTCAATGGATTCATTTGTCAAGACTATAGCTCTGCAAGAGGAT