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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtacacattaacaacacctgggtgttcaaaaaagatcttgagggtttatttgatctattgatgattctaacactattagatgtttgaatggttgcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACGAGGAATTATGTTCCAGGAAGCAGTGATCCTCATAGCAGTGGTTTGCGGC

Basic information

species Zea mays
transcript GRMZM2G107867_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G107867_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 3'ss of exon 8
gttagtacacattaacaacacctgggtgttcaaaaaagatcttgagggtttatttgatctattgatgattctaacactattagatgtttgaatggttgcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACGAGGAATTATGTTCCAGGAAGCAGTGATCCTCATAGCAGTGGTTTGCGGC
|||||| || ||| ||| || ||   |||   | | |  |    | |   | ||| ||  | ||     ||| |||               ||||||    |   |||| |||||||| ||||   | || ||||| |||||| | |||||   ||| ||| ||||| |||||||||||||||||||||||  |||||||||||| |
gttagttcaaatttacagcatctt--tgtctgacataatttgcaaag---tgtttaattaactg-----tctgacat-------------gatggtt----cattagGAGAGGAATTTTAATCGCTTTGCTTCATCGGAATCAGCAAGTTCAAATACAAGGCATTATCTTCCAGGAAGCAGTGATCCTCATGCCAGTGGTTTGCGCC

upper sequence: GRMZM2G107867_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os08g37800.1 (Oryza sativa), 3'ss of exon 8
gttagtacacattaacaacacctgggtgttcaaaaaagatcttgagggtttatttgatctattgatgattctaacactattagatgtttgaatggttgcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACGAGGAATTATGTTCCAGGAAGCAGTGATCCTCATAGCAGTGGTTTGCGGC
|||||| || ||| ||| ||  |   |||   | | |  |    |     | ||| ||  | ||     ||| ||  ||                  |  ||   |||| |||||| | ||||   | || ||||| |||||| | |||||   ||| ||| ||||| | |||||||||||||||||||||  |||||||||||| |
gttagttcaaatttacaccatttt--tgtctgacataatttgcaaaa---tgtttaattaactg-----tctgaccttac-----------------ggttcattagGAGAGGAATCTTAATCGCTTTGCTTCATCAGAATCAGCAAGTTCAAATACAAGGCATTATCTCCCAGGAAGCAGTGATCCTCATGCCAGTGGTTTGCGCC
















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|18661445|gb|BM501401.1|BM501401
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|6031419|gb|AW076321.1|AW076321
EST:     AGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: AGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|211186172|gb|FL452293.1|FL452293
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|60341419|gb|DN208392.1|DN208392
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|91872727|gb|EB402684.1|EB402684
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|6056642|gb|AW091047.1|AW091047
EST:     AGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: AGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|32930411|gb|CF035223.1|CF035223
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTA
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTA
EST: gi|211210980|gb|FL114022.1|FL114022
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|211186173|gb|FL452294.1|FL452294
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|60398350|gb|DN231166.1|DN231166
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|71762342|gb|DR960279.1|DR960279
EST:     GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: GGTTTAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|211208425|gb|FL114020.1|FL114020
EST:     TAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
genomic: TAGAGCAACTAGTGGCTATCTTGGGGCAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACG
EST: gi|211440538|gb|FL230375.1|FL230375
EST:     GTTTAGAGCAACTAGTGGCTATCTTGGGGGCAGATTATCAAGAATCANTG                         GACAGGAATTTAAATCAGCTGGCGTCATCTGAAATCATCTAGTTCTGGGTA
genomic: GTTTAGAGCAACTAGTGGCTATCTTGGGG-CAGATTATCAAGAATCAATGgttagtacac ... gcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAA-TCATCTAGTTCTGG-TA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatctattgatgattctaacactattagatgtttgaatggttgcctctccagGACAGGAATTTAAATCAGCTGGCGTCATCTGAATCATCTAGTTCTGGTACGAGGAATTATGTTCCAGGAAGCAGTGATCCTCATAGCAGTGGTTTGCGGC
                ttctaac  putative branch site (score: 1)
                                           ttgcctctcc  putative PPT
                         tattagat  TA-rich tract