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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcccgtaggttgcagtatcgtgtttgggaaaaaaaaatgatacaatggcgatgtgcctgaatttggagtgctgacatggtaatatgcgctcttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACTGTTGGCTTGGTCTGTGAAAATTACAGCGGTCTGTTCAGACGACCCCGTG

Basic information

species Zea mays
transcript GRMZM2G085747_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G085747_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g35960.2 (Oryza sativa), 3'ss of exon 3
gtgagcccgtaggttgcagtatcgtgtttgggaaaaaaaaatgatacaatggcgatgtgcctgaatttggagtgctgacatggtaatatgcg-ctcttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACTGTTGGCTTGGTCTGTGAAAATTACAGCGGTCTGTTCAGACGACCCCGTG
|||||| ||     | |  | | |   | | ||      | | ||    |   | |||    |  ||||     ||||   |||  | | || || || | | ||||| ||||||||||||||||||||||| || ||||||||||||||||| |||||||| |||||||| || |||||||| ||  ||||||| || |||||||
gtgagcgcgctctct-cgatgttgcagtggcgatggttgattcatgagctcaaggtgtttgcgtgtttgattgtctgatgcggtggtgttcgtctgtttttgccagGTTCTAATTGACAATATCAAGGATTTCGCGCCGATAATATACACTCCGACTGTTGGGTTGGTCTGCGAGAATTACAGTGGCTTGTTCAGGCGCCCCCGTG

upper sequence: GRMZM2G085747_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv15s0046g03670.t01 (Vitis vinifera), 3'ss of exon 3
gtgagcccgtaggttgcagtatcgtgtttgggaaaaaaaaatgatacaatggcgatgtgcctgaatttggagtgctgacatggtaatatgcgctcttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACTGTTGGCTTGGTCTGTGAAAATTACAGCGGTCTGTTCAGACGACCCCGTG
        |||||||      | |||  |   |      |||  ||        | |    | ||| |       | |     |  |||  | | |  |   ||||| || ||||| || ||||| || ||||| |||||||||||||||||||| ||||| ||||| ||| |||| |||   ||  |||| ||||| || ||||
--------gtaggtttggtggtggtgcatactagctggtaatcttagcccatttaagcattttaatctaa-----taaagcaatcctat-tgatttcttatccagGTTCTTATTGATAACATCAAAGACTTTGCACCGATAATATACACTCCCACAGTTGGATTGGTGTGTCAAAACTACTCGGGGTTGTTTAGACGTCCACGTG
















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|76919658|gb|DV167819.1|DV167819
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAA
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAA
EST: gi|211274711|gb|FL015918.1|FL015918
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|211274712|gb|FL015919.1|FL015919
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATA
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATA
EST: gi|74238358|gb|DT646272.1|DT646272
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|29130557|gb|CB381261.1|CB381261
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|29130494|gb|CB381198.1|CB381198
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|149102281|gb|EE287658.2|EE287658
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|211384290|gb|FL369291.1|FL369291
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|211048980|gb|FL422995.1|FL422995
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|211016654|gb|FL375789.1|FL375789
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|211527375|gb|FL402913.1|FL402913
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|32801635|gb|CD953871.1|CD953871
EST:     GATCCCCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
EST: gi|71437509|gb|DR818559.1|DR818559
EST:     GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGG                         GTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT
genomic: GGAGGATCCTCAACAGGTTGCACGACCGGAACGAGACATTGTACTACAGGgtgagcccgt ... ttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcgatgtgcctgaatttggagtgctgacatggtaatatgcgctcttctcgacagGTGCTAATTGACAATATCAAGGATTTTGCCCCGATAATATACACTCCCACTGTTGGCTTGGTCTGTGAAAATTACAGCGGTCTGTTCAGACGACCCCGTG
                      tgctgac  putative branch site (score: 2)
                                        cgctcttctc  putative PPT
                                 taatat  TA-rich tract