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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatcttgtttggcaacaatcttcttccctttatcctctttgtcgcttaattggattactacattaaaacctgacacaagcattccctcaacaacaacaacaacaacaacaaactgacacaagttatggatggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTACAATGGCGGGAGAGTTTGCACACAGGAACGTGCCCCCAGCCGTCGGTTG

Basic information

species Zea mays
transcript GRMZM2G108228_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108228_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os04g59130.1 (Oryza sativa), 3'ss of exon 4
gtgaatcttgtttggcaacaatcttcttccctttatcctctttgtcgcttaattggattactacattaaaacctgacacaagcattccctcaacaacaacaacaacaacaacaaactgacacaagttatggatggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTACAATGGCGGGAGAGTTTGCACACAGGAACGTGCCCCCAGCCGTCGGTTG---
                               |  |    ||||| |  | |||    ||  | ||   | |  || ||||  ||     |||    ||   |||   | || || |||||| |    ||||     ||||||||||||||||||| || || ||||| |||||||| ||||| ||| |||| |||||||   ||| | ||||| |||| |||||  |    |||||||||||    
------------------------------gtaaagttcctttgcca-tcaatc---ttcttgcacccacat-tgtcacatacacgtggtca----cagatacatgcataataatctgacatacaccatgg----tattgcagGTCAAATTTCCTCGGCACCAAATTCATCATCTATGACACGCAGCCTCCATACAATGCTCGGACACTTTGCTCACAAGAACGGACG---AGCCGTCGGTTCTCC
















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|71318795|gb|DR796159.1|DR796159
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAGG                         GTCAAATTTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTT-CCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
EST: gi|76288559|gb|DV028127.1|DV028127
EST:     CTCGAGGAATTTCTCCCGATCGAGCACTGGCTACCAT-GGGAAGCTAAAG                         G-CAAATTTCCTTGGAACTAAATTTATC
genomic: CTCGAGGAATTTCTCCCGATCGAGCACTGGCTAC-ATTGGGAAGCTAA-Ggtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATC
EST: gi|32942208|gb|CF047027.1|CF047027
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
EST: gi|31359011|gb|CD443368.1|CD443368
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
EST: gi|78111619|gb|DV530016.1|DV530016
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAA
EST: gi|71442832|gb|DR823882.1|DR823882
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAA                         GTCAAATTTCCTTGGAACTAAATTTATCATCTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTA
EST: gi|71766358|gb|DR964295.1|DR964295
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTA
EST: gi|93283817|gb|EB676081.1|EB676081
EST:     ACTCGAGGAATTTCNTCC-GATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGC
genomic: ACTCGAGGAATTTC-TCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGC
EST: gi|50327951|gb|CO523077.1|CO523077
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACG
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACG
EST: gi|32843854|gb|CD983535.1|CD983535
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
EST: gi|32844683|gb|CD984364.1|CD984364
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGT
EST: gi|71312297|gb|DR792672.1|DR792672
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATT-CCTTGAAACTAA-TTTATCATCTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTA
EST: gi|78079710|gb|DV508122.1|DV508122
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAA                         GTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTA
EST: gi|91050137|gb|EB160555.1|EB160555
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAA                         GTCAAATTTCCTTGGGACTAAATTTATCATCTA
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTA
EST: gi|91871229|gb|EB401309.1|EB401309
EST:     GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAG                         GTCAAATTTCCTTGGAACTAAATTTATCATCT
genomic: GACTCGAGGAATTTCTCCCGATCGAGCACTGGCTACATTGGGAAGCTAAGgtgaatcttg ... ggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaacaacaacaacaacaacaacaaactgacacaagttatggatggcattgcagGTCAAATTTCCTTGGAACTAAATTTATCATCTACGACACACAGGCTCCGTACAATGGCGGGAGAGTTTGCACACAGGAACGTGCCCCCAGCCGTCGGTTG
                         aactgac  putative branch site (score: 2)
                                  aagttat  TA-rich tract