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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttccttttccccaaccttcttcttcttccaatttttttttttcattctccagctcacgcttttcgttttttgtatttttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCAATCTCTTTTTTAATAGAAG

Basic information

species Glycine max
transcript GLYMA01G39200.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G39200.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G37040.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------------------------------gttcttccttttcc--------ccaaccttcttcttcttccaatttttttttttcattctcc----agctcacgcttt---tcgttttttgtatttt-----tgtga-cagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCAATCTCTTTTTTAATAGAAG
                                                                      | |   | | || |          ||   | |       ||| |||  |  ||| ||||       ||  ||         ||  | |  | |||||     | ||| ||||||  |  |||||||||||||| ||||| |||||  ||||||| || ||| ||||| | |||||||||||
gttcttctttcttttcattatctacttcttccgctactgctactgctagttttattgatgatgaatgttagattagcatattacagaaaagattaaaactttcgaatgcccagtttgctagtttgattcatagataagaacagaaccgaaatcaatgtgggaattttctcaatatgagcagGAAGAAGACATGTTTCGATGCAATTATCAAGAACCTTTTCTGGATTAACCGATCTCCTGTTTAATAGAAG

upper sequence: GLYMA01G39200.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0031g00820.t01 (Vitis vinifera), 3'ss of exon 1
gttcttccttttccccaaccttcttc-----ttcttccaatttttttttttcattc-----tccagctcacgcttttcgttt-tttgtatttttg-tgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCAATCTCTTTTTTAATAGAAG
  | ||||||    |||   ||  |      | || || ||||  ||  || ||||     |  || |  |  | || | || |||   ||  |  |  |||||| |||||||||||| ||||| ||||| |||||  |||||||||| || |||||| | || ||||||||
--ttttccttgaaaccagtttttatgaaatgtgctcccgatttggttgcttgattcctgacttgagtttgccttcttggcttatttccgttcctaattgcagGAAACAAGCATGTTTCTATGCAATTATCAAGAACTTTTTCTGGCTTAACTAATCTCCTATTCAATAGAAG
















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|213615033|gb|DB960758.1|DB960758
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|209704050|gb|BW673650.1|BW673650
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|209710614|gb|BW676540.1|BW676540
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|12691283|gb|BG157619.1|BG157619
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|13125644|gb|BG316214.1|BG316214
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|151401050|gb|EV270864.1|EV270864
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|192305235|gb|FG993973.1|FG993973
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|17023236|gb|BM094270.1|BM094270
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|213589240|gb|DB957772.1|DB957772
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|298197093|gb|HO041836.1|HO041836
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|151410050|gb|EV279858.1|EV279858
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|192300116|gb|FG991892.1|FG991892
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCT-GCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
EST: gi|298189864|gb|HO038267.1|HO038267
EST:     TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTG                         GAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA
genomic: TTCAACTTCAAGGCACCAACCTCTTCCTCAACTATTCCGTTACAACCCTGgttcttcctt ... tttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttttcattctccagctcacgcttttcgttttttgtatttttgtgacagGAACCAAGCATGTTTCGATGCAGTTATCTAGAACACTTTCTGGCTTGACCAATCTCTTTTTTAATAGAAG
                   agctcac  putative branch site (score: 3)
                           cttttcgttttttgta  CT-rich tract
                                  ttttttgtatttttgt  TA-rich tract