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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttagtagcttcctcactttttccaacaagcatagtagcatatatttttcaagtatagtttcctcctacaatcatctgatattatttaacttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTGTTGCCAACACCAGTTTGGTACCGATTTTTCTTGAACAAGGATTATGGAA

Basic information

species Glycine max
transcript GLYMA04G40220.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40220.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g25180.1 (Oryza sativa), 3'ss of exon 4
-gtttttagtagcttcctcactttttccaacaagcatagtagcatatatttttcaagta--tagtttcctcctacaatcatctgatattatttaacttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTGTTGCCAACACCAGTTTGGTACCGATTTTTCTTGAACAAGGATTATGGAA
  | || | |  ||  || | || ||     |       |   |  |        ||||  | |||    | |   |    || | | | | |   ||  |  ||||||||||| |||| || || || ||   |||||| || |||||||||||||||||||| || ||||||||||| || ||  |||||||||| ||||| |
tatcttgaatt-ctagcttatttcttattttagatccttttatagttgcaagcttagtagttggttctgacttctga--ggctcaaactttctgttttgct--agGGTCAAATGCTAACCCTTGTGGAATACCTTCTGCTCCTATATCGTGCCTTGTTGCCAACTCCTGTTTGGTACCGTTTCTTTCTGAACAAGGAATATGGGA

upper sequence: GLYMA04G40220.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 4
--------------gtttttagta----gcttcctcactttttccaacaagcatagtagcatatatttttcaagtatagtttc------ctcctacaatcatctgata-ttatttaacttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTGTTGCCAACACCAGTTTGGTACCGATTTTTCTTGAACAAGGATTATGGAA
                ||| | ||      || ||    | |  ||    |    ||  | |      |||| ||  ||| |        ||  |||| ||      | | |||    ||   |||||| |||||||||||  | || || |||  ||| || ||||| || || || |||||  | || || ||||||||||||||| |||||||||| |||||||
gtatgctgtttatgcatttgaatactatattttctgtgatctatcattgtgtgccgtttcctgatagcttcaggtgcagtgttatttgtttctgacaaccagtaatcaatcattcctttttgctcagGGCCAAATGTTAACAGTTGTGGAATATTTTCTACTTCTGTACCGAGCATTATTGCCTGCTCCTGTATGGTACCGATTTTTCCTGAACAAGGAGTATGGAA
















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|151406003|gb|EV275818.1|EV275818
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|22525728|gb|BU084539.1|BU084539
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|22525809|gb|BU084620.1|BU084620
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|208248028|gb|GE049812.1|GE049812
EST:     AACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: AACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|207782004|gb|GD754793.1|GD754793
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|31307902|gb|CD393105.1|CD393105
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
EST: gi|16343713|gb|BI969308.1|BI969308
EST:     TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAG                         GGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG
genomic: TGTTGCTTATTTACTACAAAAATGGAAGAGGCCATAACTTCCGTCGGCAGgtttttagta ... cttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttcaagtatagtttcctcctacaatcatctgatattatttaacttatttcagGGTCAAATGTTAACTCTGGTCGAGTATACTCTGCTGCTGTATCGTGCCTTGTTGCCAACACCAGTTTGGTACCGATTTTTCTTGAACAAGGATTATGGAA
                                       atttaac  putative branch site (score: 3)
                                             cttatttc  CT-rich tract
                         aatcatctgatattat  TA-rich tract