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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagtcctttattatcccttttcatttgttgtatttacctactatcaaatgattaactggtattttgatcttttttccatcttttccatcattccattttgttgagtgtcctaatttactatatatttggtaatactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCAGGCACAGGCTCATCATATTGCTAATTCCATTAGTTCGAATTGGAACTCT

Basic information

species Zea mays
transcript GRMZM2G149224_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149224_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g29170.2 (Oryza sativa), 3'ss of exon 8
gtacagtcctttattatcccttttcatttgttgtatttacctactatcaaatgattaactggtattttgatcttttttccatcttttccatcattccattttgttgagtgtcctaatttactatatatttggtaatactt-tgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCAGGCACAGGCTCATCATATTGCTAATTCCATTAGTTCGAATTGGAACTCT
|||  ||||| | | ||   ||  | ||   || || | |||| |||||  || | ||     || | |  ||||| |||||||| |                    || |||  ||  | |   | ||   |||||||| |||||||| || |||||||||||||| |||||| | || |||||||||||||| ||||   |||| |||||||||||| ||||  | || || |  |||||||||
gtatggtcctctgtcatt--ttccctttaactgaatatgcctattatcagctggtgaaacaccatctagg-cttttatccatcttct--------------------gtttccagat--agtgattgttgaataatacttatgcagGTTTGGACACAAGGTTGAGAAGCTCGAGCCTTCAAATTTTCACATCACACAGGTGGAGGCGCATCATATTGCTCATTCAGTCAGCTCAACATGGAACTCT
















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|87151705|gb|DY396494.1|DY396494
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAAGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
EST: gi|32863056|gb|CF002738.1|CF002738
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
EST: gi|32838760|gb|CD978441.1|CD978441
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
EST: gi|32838133|gb|CD977811.1|CD977811
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
EST: gi|32837008|gb|CD976686.1|CD976686
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
EST: gi|60337162|gb|DN204135.1|DN204135
EST:     TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCT                         GTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA
genomic: TCACTAACTGCTCTGTTCTTATTCATTCATGGCATGCTGCCATCAAATCTgtacagtcct ... tactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattccattttgttgagtgtcctaatttactatatatttggtaatactttgcagGTTCGGTCACAAGGTTGAGAAACTCGAGGCCTCTAATTTTCACATCACCCAGGCACAGGCTCATCATATTGCTAATTCCATTAGTTCGAATTGGAACTCT
                    tcctaat  putative branch site (score: 2)
                       taatttactatatatt  TA-rich tract