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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatcactattactaagctatttttctgtttccctttttctttcttaaaaggatcagtcagcaaatgtttatgcaaattcttgctcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGC

Basic information

species Glycine max
transcript GLYMA07G39870.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G39870.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g07830.1 (Oryza sativa), 3'ss of exon 3
gtaaatcactattactaagctatttttctgtttccctttttctttcttaaaaggatcagtcagcaaatgtttatgcaa-attcttgctcctctg--cagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGC
         |  ||| |   ||| ||    | | |  | |   |  ||     | ||  | | |  |  | ||   || ||  |   |    ||  ||| ||||||  |||| ||||||||||||||| | |||||||||||||| || ||||| |||||  | ||||| ||||| ||||| |||||||| ||||| ||
--------gtgataccag--tatcttctcatatgctgtatgtgtaatt-----gttcttttaacccaaatataactaacatcatcagtgtggtgatcagCTGCTCTGAAGAGGGCAAATGTTGATCCAGCCCTTGTGCAAGAGGTCTTCTTTGGTAATGTGTTGAGTGCTAATTTGGGGCAAGCTCCTGCAAGACAAGC

upper sequence: GLYMA07G39870.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0531g00050.t01 (Vitis vinifera), 3'ss of exon 2
gtaaatcactattactaagctatttttctgtttccctttttctttcttaaaaggatcagtcagcaaatgtttatgcaaattc-ttgctcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGC
     | | |||  ||||  |   |  |   |||  ||||  |   ||    |||         |||   || ||| | |   |  |    ||| |||||||||    || |||||| ||||||||||||| || ||||||||||| |||||||| ||||| ||||| ||||| ||||| ||||| || ||||||||
----gtaattatc-ctaacttcactaaccacttcaattttattcctttg--gggactg------aaa---ttctgcgattcaatcacgaaactgtagGTGCTCTTAGAAGGGCAAATATTGATCCATCGCTGGTCCAAGAGGTGTTCTTTGGGAACGTTCTGAGTGCAAATTTGGGGCAAGCTCCGGCAAGACAGGC
















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|7796605|gb|AW782002.1|AW782002
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
EST: gi|27445805|gb|CA952928.1|CA952928
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
EST: gi|19347568|gb|BM892448.1|BM892448
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
EST: gi|192299493|gb|FG990802.1|FG990802
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
EST: gi|151402278|gb|EV272091.1|EV272091
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
EST: gi|254317259|gb|GR826204.1|GR826204
EST:     CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGA                         GTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT
genomic: CACCCTATCATCTCTTTCTGCCACAGAGTTAGGCTCAATTGCTATTAAGAgtaaatcact ... tcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcttaaaaggatcagtcagcaaatgtttatgcaaattcttgctcctctgcagGTGCTCTCGAGAGAGCAAATGTTGATCCATCGCTTGTGCAAGAGGTGTTTTTTGGGAATGTTCTTAGTGCCAATTTAGGGCAGGCTCCTGCCAGACAGGC
                                      ttcttgctcctctgc  CT-rich tract
                       aaatgtttat  TA-rich tract