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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaccgttgtagtttctcggatgcccattcggtcatgttttttcaagctctaatccctatgttttctatttgcatctttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCAATGGCGCGCCACTCTTTACTGTTGTGCAGTCAATCGAGCCATCGAAACA

Basic information

species Zea mays
transcript GRMZM2G064212_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G064212_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g27350.2 (Oryza sativa), 3'ss of exon 8
gtgaaccgttgtagtttctcgga----tgcccattcggtcatgttttttcaagctctaatccctatgttttctatttgcatctttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCAATGGCGCGCCACTCTTTACTGTTGTGCAGTCAATCGAGCCATCGAAACA
|||||| ||| | |        |    ||     ||  | | |||   || |    |  |     | ||| || | |   |||  ||||| ||||||||||||||||||||||||||||||||||||| | | ||| || |||||||| || |||||||| || |||||||||||  |  | || || |||||
gtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA

upper sequence: GRMZM2G064212_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g58560.1 (Oryza sativa), 3'ss of exon 8
gtgaaccgttgtagtttctcggatgcc----cattcggtcatgttttttcaagctctaatccctatgttttctatttgcatctttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCAATGGCGCGCCACTCTTTACTGTTGTGCAGTCAATCGAGCCATCGAAACA
|||||| ||  | ||    |  ||| |    |||    | | |||   || |    |  |     | ||| || | |||  ||  ||||| ||| ||||| ||||||||||||||||| ||| ||||| | |  || || |||||||| || |||||||| ||||||||||||||  |  | || || |||||
gtgaactgtgattgtcgaacaaatgtcgcgtcatcattttaagttcactctaatcttggttttcttatttactgtctgc--ctgcttatgtagATGACTTCGATGATTTCTGTTCTCGCGCCACTGAGCTAGTAGATAAAGCCAATGGAGCACCACTCTTCACTGTTGTGCAGTCGGTTCAACCGTCAAAACA
















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|76289472|gb|DV029040.1|DV029040
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|71320080|gb|DR796795.1|DR796795
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTTTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|60357858|gb|DN224831.1|DN224831
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|89764485|gb|DY691273.1|DY691273
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|71304474|gb|DR788354.1|DR788354
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|88752742|gb|DY536883.1|DY536883
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTTTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
EST: gi|60356331|gb|DN223304.1|DN223304
EST:     GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAG                         ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA
genomic: GGAACAAATAGATCCCTCCCTGGCTATTGGTTTTTACTGTCGTGACAAAGgtgaaccgtt ... ttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgttttttcaagctctaatccctatgttttctatttgcatctttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCAATGGCGCGCCACTCTTTACTGTTGTGCAGTCAATCGAGCCATCGAAACA
               ctctaat  putative branch site (score: 3)
                                        catcttttt  putative PPT
                         tatgttttctattt  TA-rich tract