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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcagtgcattattttgggaaatcgttttattcattgctttctctgttcaactgatttcctgaaattttgagtgaactatgcaattggctagcttgaaaattgacaaataaaaattaggaatgtctcttttacttattctgtttatatatggaatatgacatttgctctgattttttcataatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAGCATGCATATTTAATCACTGATGTCCGTTTCAGTCCAAGCATGCCTCGTC

Basic information

species Glycine max
transcript GLYMA14G16040.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv04s0008g04910.t01 (Vitis vinifera), 3'ss of exon 4
gttagtcagtgcattattttgggaaatcgttttattcattgctttctctgttcaactgatttcctgaaattttgagtgaactatgcaattggctagcttgaaaattgacaaataaaaattaggaatgtctcttttacttattctgtttatat-atggaata-tgac------atttgctctgattttttcataatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAGCATGCATATTTAATCACTGATGTCCGTTTCAGTCCAAGCATGCCTCGTC
                                   | | |||        || || | ||    |   |||   ||||||   || |     |||     | |  |||  ||     |   | ||||  || |    ||     |||   || || ||| | | ||      | ||    | ||  ||| | ||||||||| || || ||||  |||||  || ||||    ||| | || |||||||| ||| ||   |||||||||||||||||||||||||| |||||||  ||||
----------------------------------gtaagtgccaagaggattaaagt-atcctatattattaaaagtgaatgttgaagagcacta----aacatgtgatgaagggggagctgtaatgcttcatcatgttgcatagttaggatcatagaagaataactgaactacttttcttaatggtttta-aatgcagGCAGTATTGTGGTATACAGACACTTTAAAGACAAAAACTACACTTGAAGAACATTCAATGTTAATCACTGATGTCCGTTTCAGTCCGAGCATGCTGCGTC

upper sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 14
gttagtcagtgcattattttgggaaatcgttttattcattgctttctctgttcaactgatttcctgaaattttgagtgaactatgcaattggctagcttgaaaattgacaaataaaaattaggaatgtctcttttacttattctgtttatat-atggaatatgacatttgctctgattttttcat--------aatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAGCATGCATATTTAATCACTGATGTCCGTTTCAGTCCAAGCATGCCTCGTC
                                   | | |||        || || | ||    |   |||   ||||||   || |     |||     | |  |||  ||     |     ||||  || |    ||     |||   || || ||| |  | |  ||  ||  |||| | |         ||||||||| || || ||||  |||||  || ||||    ||| | || |||||||| ||| ||   |||||||||||||||||||||||||| |||||||| ||||
----------------------------------gtaagtgccaagaggattaaagt-atcctatattattaaaagtgaatgttgaagagcacta----aacatgtgatgaagggggagctcaaatgcttcatcgtgttgcatagttaggatcatagaaga--ataactgaactagttttcttaatggtcttaaatgcagGCAGTATTGTGGTATACAGACACTTTAAAGACAAAAACTACACTTGAAGAACATTCAATGTTAATCACTGATGTCCGTTTCAGTCCGAGCATGCCGCGTC
















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|208101643|gb|GD899576.1|GD899576
EST:     GGTGGCCATGAACAAAAAG                         GCTG-TTTATGGTTCACAGATTCTACTAAAACAGAAAGCCACTCTTGAAG
genomic: GGTGGCCATG-ACAAAAAGgttagtcagt ... cataatgcagGCTGTTTTATGGTTCACAGATTCT-CTAAAACAGAAAGCCACTCTTGAAG
EST: gi|192318709|gb|FK011407.1|FK011407
EST:     ATTTCTCATCTGATGGGAAATTGCTTGCTAGCGGTGGCCATGACAAAAAG                         GCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAG
genomic: ATTTCTCATCTGATGGGAAATTGCTTGCTAGCGGTGGCCATGACAAAAAGgttagtcagt ... cataatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAG
EST: gi|192298457|gb|FG989178.1|FG989178
EST:     ATTTCTCATCTGATGGGAAATTGCTTGCTAGCGGTGGCCATGACAAAAAG                         GCTGTTTTATGGTTCACAGATTCCCTAAAACAGAAAGCCACTCTTGAAGAG
genomic: ATTTCTCATCTGATGGGAAATTGCTTGCTAGCGGTGGCCATGACAAAAAGgttagtcagt ... cataatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattctgtttatatatggaatatgacatttgctctgattttttcataatgcagGCTGTTTTATGGTTCACAGATTCTCTAAAACAGAAAGCCACTCTTGAAGAGCATGCATATTTAATCACTGATGTCCGTTTCAGTCCAAGCATGCCTCGTC
                                 ctctgat  putative branch site (score: 4)
                                       ttttttcat  CT-rich tract
         tttatatatggaatat  TA-rich tract