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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatttatctgctggtcttgttttaaatttgtttgagttgcctcttctgtgcagaatttagtttgttaatttttttccacccatttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTGTTGATTCCTCAGATCCCGTGG

Basic information

species Glycine max
transcript GLYMA04G41600.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G41600.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 8
gtatatatttatctgctggtcttgttttaaatttgtttgagttgcctcttctgtgcagaatttagtttgttaatttttttccacccatttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTGTTGATTCCTCAGATCCCGTGG
           |      |  || || ||  | |  |    |  |      |   || || || | ||||    ||  |  |||     | || |||||| ||| || ||        |   ||||||||||||||||||||| ||||||||||| ||||||||||| |
----------gtaattaagcattcttctacttgttctctgttcacaaaacgtagtcaaaaatttgcttgt---gttgatatcactttcctctggcagCTGCTGAGTTCCTCCGTAAATCCCCTGAAGGGAAGTATGATGCCATCATTGTTGATTCTTCAGATCCCGTAG

upper sequence: GLYMA04G41600.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------gtatatatttatctgctggtcttgttttaaat--ttgtttgagttgcctcttctgtgcag---aatttagtttgttaatttttttccacccatttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTGTTGATTCCTCAGATCCCGTGG
                             | || ||  | |        |   |  |||  |   || || ||| | ||      |      | ||  || || ||||  ||   |    ||||| |||||||||||||||||| |  ||    |||||||||||||||||| || ||||||||||| |||||||| ||||
gtatgttcattctcaaaataatttcaaagagatcttactttatcctatgtaactagaataatgacttcagctgcttttttccaatatcttgctgtaccttcttgatttcatttt-catgattttggcagCTGTTGAATTTCTTAGACATGTACCTGAAGGGAAGTATGATGCAATTATTGTTGATTCATCAGATCCTGTGG
















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|254325922|gb|GR838803.1|GR838803
EST:     GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGT-GGTGATG                         CTGTTGA-TTTCT-AAATCTGCT
genomic: GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATGgtatatattt ... tttttgacagCTGTTGAATTTCTTAAATCTGCT
EST: gi|254327481|gb|GR837104.1|GR837104
EST:     GTTAGCTATTGG-TTTGA-GATTCTCGAGTACATCTGCATGT-G-TGATG                         CTGTTGA-TTTCT-AAATCTGCT
genomic: GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATGgtatatattt ... tttttgacagCTGTTGAATTTCTTAAATCTGCT
EST: gi|18040670|gb|BM308964.1|BM308964
EST:     GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATG                         CTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG
genomic: GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATGgtatatattt ... tttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG
EST: gi|51338286|gb|CO982152.1|CO982152
EST:     GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATG                         CTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG
genomic: GTTAGCTATTGGGTTTGAAGATTCTCGAGTACATCTGCATGTTGGTGATGgtatatattt ... tttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG
EST: gi|254325923|gb|GR838804.1|GR838804
EST:     TTAGCTATT-GGTTTG-AGATTCCTCGAGTACATCTGCATGTTGGTGATG                         CTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG
genomic: TTAGCTATTGGGTTTGAAGATT-CTCGAGTACATCTGCATGTTGGTGATGgtatatattt ... tttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctcttctgtgcagaatttagtttgttaatttttttccacccatttttgacagCTGTTGAATTTCTTAAATCTGCTTGTGAAGGGAAGTATGATGCCATAATTGTTGATTCCTCAGATCCCGTGG
                         tgttaat  putative branch site (score: 3)
                               tttttttccacccatt  CT-rich tract
              agaatttagtttgtta  TA-rich tract