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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgcttgccacttggttcatctttcttcttgacacacctcgttttttatcctaccaaatgtgcgtgtatatatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG

Basic information

species Zea mays
transcript GRMZM2G171435_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171435_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 3
gtttgtgcttgccacttggttcatctttcttcttgacacacctcgttt----------tttatcctaccaaatgtgcgtgtat-atatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG
||  |  |      | |||| |||| | ||| ||||  || ||   ||          || |||  || || ||     || | ||    ||||| ||||||||||||||||||| || || || || ||||| ||||||||||||||||||
gtacgcaccatttccctggtgcatcct-ctttttgatgcatctttcttgagtgacatattgatcgcactaattgcatcggtctgattctactttctagGCTCGCTACTTCTTCCAGCAGCTTATCTCGGGAGTCAGCTACTGCCATTCAATG

upper sequence: GRMZM2G171435_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 3
gtttgtgcttgccacttg-gttcatctttcttcttgacacacctcgttttttatcctaccaaatgtgcgtgtatatatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG
|||  |   |    |||   | ||| ||| ||   |        |  ||     | |||||  | ||  | | ||| | |  || ||||| |||| ||||||||||||||| || ||||| || |||||||| ||| |||||
gttcttatctattcctttcatgcatttttgttgcagtgctgttgcagttaccg-cttaccatttatgtctat-tatgttttgttgcagGCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATG

upper sequence: GRMZM2G171435_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 3
gtttgtgcttgccacttggttcatctttcttcttgacacacctcgttttttatcctaccaaatgtgcgtgtatatatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG
        ||   |  || | |||   |    |||    |    | |   ||| |     | |||  || | | | |||  | | |||| |||| ||||||||||||||| || |||||||| |||||||| ||| |||||
-------gttcttatctgttgcattcattcatttgtgtaatgctgctgcatatgcctttta-tgtctgtttttttttatgctgc-agGCGCGCTTCTTCTTCCAACAACTTATATCAGGAGTTAGCTACTGTCATGCAATG

upper sequence: GRMZM2G171435_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 3
-gtttgtgcttgccacttggttcatctttcttcttgacacacctcgttttttatcctaccaaatgtgcgtgtatatatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG
  | | | ||   |  ||  | ||| ||| ||   |        |  ||  |  | |||||    ||| | | ||| | |  || ||||| |||| ||||||||||||||| || ||||| || |||||||| ||| |||||
gttcttttctattcctttcatgcatttttgttgcagttctgttgcagttactg-cttaccattaatgcctat-tatgttttgttgcagGCACGCTTCTTCTTCCAACAACTTATATCAGGGGTTAGCTACTGTCATGCAATG

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|211022079|gb|FL377464.1|FL377464
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCAT
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCAT
EST: gi|211499753|gb|FL295241.1|FL295241
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
EST: gi|60353530|gb|DN220503.1|DN220503
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
EST: gi|211499759|gb|FL295247.1|FL295247
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
EST: gi|148932906|gb|EE285698.2|EE285698
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
EST: gi|211204702|gb|FL178018.1|FL178018
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTT
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTT
EST: gi|78107855|gb|DV526273.1|DV526273
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCA
EST: gi|211108565|gb|FL429107.1|FL429107
EST:     GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAG                         GCTCGCTACTTCT
genomic: GTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgctt ... atctttccagGCTCGCTACTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacacacctcgttttttatcctaccaaatgtgcgtgtatatatatctttccagGCTCGCTACTTCTTCCAACAACTCATTTCAGGAGTAAGCTACTGCCATTCAATG
 tcttgac  putative branch site (score: 3)
                                            tatctttcc  putative PPT
                                    tgtatatatatcttt  TA-rich tract