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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaagaaagaattggaagtggttgaagttctttctttttcaaactttgacaattgcttttttgagaatttgtagtactaacctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG

Basic information

species Glycine max
transcript GLYMA13G42800.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 7
-gaagaaagaattggaagtggttgaagttctttctttttcaaactttgacaattgctt--ttttgagaatttgtagtactaacctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
    |     | |   | || ||  ||   ||  || || |  | |  |  ||| |||  | |||   |||||||| |||||    |  ||| | ||||  |||||| |||||||||  | |||   || ||  |||| || ||||| ||||| ||||||||||||||||| || ||||| || |||||||||||
catggccttcactaccactgatt--aggaattgattcttaagtcatgcaatattacttaatattgctcatttgtag-actaatagttcatttgacatatacagGTAACTAGCCATGAGTCGAGCCCTGTGGCTAGATGTCGAAGAGTATATGCTCATGCTCATGATTATCATATTAATTCAATCTCAAATAACAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 5
gaagaaagaattggaagtggttgaagttcttt-ctttttcaaactttgacaattgcttttttgagaatttgtagtactaacctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
   |      || |  ||   | ||| ||  | |    | |  ||    || | |    |||| |   |  | | ||| |   ||||||    |||| ||||| |  ||||| || || | | | || ||  ||||||| ||||||||||| |||||||||||||| || || ||||| || || |||| |||
-ttgtttccttttgtcgtaactaaagctcagtaccaaattagtctaatgcactagtcaatttgtgttctacttgaacttatgggtgtttctgcatatatagGTTACCAGCCAGGAGACTAACCTTGTGGCTAGATGCCGAAGAGTGTATGCCCATGCTCATGATTACCATATTAATTCAATCTCCAATAGCAG

upper sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 5
gaagaaagaattggaagtggttgaagttctttctttttcaaac-tttgacaatt---gcttttttgagaatt---tgtagtacta-acctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
          |   | ||      |||| || | |  |   |  ||| | || |   |  ||  ||| || |   |||  |   | || |    | || ||||||||||||   |||| ||| |||||| | || ||  |||| |||||||| ||||| |||||||| || ||||| |||||||||||||||||||| ||
--------gttccaaggtatacttagttattacgtcattggatgtttaataagtttagtgttcatgataactgcctgtgatctaacacttccagtatacaatatgtagGTATCAAGCCCTGAGACCAGCCTGGTGGCTAGATGTCGTAGAGTTTATGCTCATGCTCACGACTATCATATCAATTCTATTTCAAATAATAG

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|7686354|gb|AW757002.1|AW757002
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|7686354|gb|AW757002.1|AW757002
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|7686354|gb|AW757002.1|AW757002
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|19936402|gb|BQ080848.1|BQ080848
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATG                         GTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCG
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGgtagttgtat ... aaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCG
EST: gi|21887329|gb|BQ740542.1|BQ740542
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|21887329|gb|BQ740542.1|BQ740542
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|21887329|gb|BQ740542.1|BQ740542
EST:     ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGG                         T
genomic: ATGACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCAT-Ggtagttgtat ... aaatatgtag-
EST: gi|208327646|gb|GE119368.1|GE119368
EST:     ACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATG                         GTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCG
genomic: ACTTTTCATTTCCACCAGGAGGCATACCATCACTAAGATTACCCATGgtagttgtat ... aaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacaattgcttttttgagaatttgtagtactaacctgtgttttaaaatatgtagGTAAGTAGCCATGAAACCAGCTTAGTTGCCCGATGCCGTAGAGTGTATGCGCATGCTCATGATTATCACATCAATTCTATTTCAAATAACAG
                            tactaac  putative branch site (score: 0)
                                      tgttttaaaatatgta  TA-rich tract