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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCTCACTTCAATCCGTTCAAGAAGGATCATGGGGCTCCTTCAGATGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatcttctttctttttcatatttattttgatatttcttactattctttacgagttgtctgcacagaaatttccaaagagctttctgttttgtag

Basic information

species Glycine max
transcript GLYMA16G27020.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27020.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g07280.t01 (Vitis vinifera), 5'ss of exon 3
GTCCTCACTTCAATCCGTTCAAGAAGGATCATGGGGCTCCTTCAGATGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtat-tatcttctttctttttcatatttattttgatatttcttactattctttacgagttgtctgcacagaaatttccaaagagctttctgttttgtag
| || || || |||||  | ||||| |||||||| |||||| ||||| |  |||||||||||||||||||||| ||||| | ||| || || |||||| | ||   | | | || |   ||| || ||||  | ||   |  |     ||    || | || ||||   | |          |||  | ||||||
GACCCCATTTTAATCCACTGAAGAAAGATCATGGCGCTCCTACAGATAAAGAGCGCCATGCTGGTGATTTGGGAAACATCGTTGCCGGTCCAGATGgtgtgtaatgtatcttttatctgtatgtaatttgggaattgcgaagagataatatcgcttctttg-acaggcttat----------ttcaatgttgtag
















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|23058846|gb|BU578339.1|BU578339
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAAAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|31470014|gb|CD412042.1|CD412042
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|31470725|gb|CD412753.1|CD412753
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATNAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|7146773|gb|AW508695.1|AW508695
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|209702151|gb|BW677951.1|BW677951
EST:     TGATAAGCGCCATGCTGGAGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|192334422|gb|FK024115.1|FK024115
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|6747004|gb|AW317460.1|AW317460
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|31472202|gb|CD414230.1|CD414230
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|209702150|gb|BW677950.1|BW677950
EST:     TGATAAGCGCCATGCTGGAGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|298171130|gb|HO016162.1|HO016162
EST:     TGATAAGCGCCTTGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|10255867|gb|BE823633.1|BE823633
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|298197096|gb|HO041839.1|HO041839
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG
EST: gi|15200962|gb|BI424621.1|BI424621
EST:     TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATG                         GAGTTGCTGAGATTTCTATTAGAGATAGACAG
genomic: TGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatctt ... tgttttgtagGAGTTGCTGAGATTTCTATTAGAGATAGACAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCCTCACTTCAATCCGTTCAAGAAGGATCATGGGGCTCCTTCAGATGATAAGCGCCATGCTGGTGATTTGGGCAACATTGCTGCAGGCCCTGATGgtattatcttctttctttttcatatttattttgatatttcttactattctttacgagttgtctgcacagaaatttccaaagagctttctgttttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG