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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat...

Basic information

species Glycine max
transcript GLYMA08G08690.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os07g25420.2 (Oryza sativa), 5'ss of exon 3
ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat-----
| || ||||||||||| ||||| || |||||||||||||| || |||||||| || |||||||| || |  ||  | || |||||||| |  ||| | |||| | ||  | |  | |  ||    |||  | |       ||| || | |     | | ||||    ||  |   | | ||         |||| |   |     
ACATCTATGAGCATGCAGTTGTTCTGAGTGTGAAAATTGAAGACCAAGATGCATTTGAAAGGGACTTTTGTCAACTCAAACCTTATTACATGGATACATGgttagttcctgtc-tacacttcacatcagttctgttaccgtatattcaatt----gtaggctgtcattttgatgcacgtaattttcttttatctaccattagttt

upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G121452_T01 (Zea mays), 5'ss of exon 3
ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat------
| || |||||||||||||||||  | ||||||||| ||||||| |||||||| || ||| | ||||||| |||| ||||||||||||| |  ||| | |||| | || ||  |  |||  ||| |  |  |     ||| |   |||| | |   ||   || | | || |  |  |    |       | ||     ||      
ACATTTATGAGCATGCTGTTGTTTTGAGTGTGAAACTTGAGGACCAAGATGCGTTTGAACGCGATTTCTGCCAGCTGAAGCCTTATTACATGGATACATGgttagttctttgtcacccaatttgtcgattt-----tatttgcctttattattttgatttct-attttttaggctgaattcatgtgatgcttcgggcaataaaaag

upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G073077_T01 (Zea mays), 5'ss of exon 3
ATATATATGAGCATGCTGTTGTCCTT-AGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaat-cttcaaccaaagcaaacagtggacatctcctgat----
  || |||||||||||||||||  || ||||||||| ||||||| |||||||| || ||| | |||||||  ||| | ||||||||||| |  ||| | |||| | || ||  |  |||  ||| |  |  |     ||| |   |||| |     ||   || | | ||| |  |  |    |         |    | ||    
-CATTTATGAGCATGCTGTTGTTTTTGAGTGTGAAACTTGAGGACCAAGATGCATTTGAACGTGATTTCTGTCAGCTAAAGCCTTATTACATGGATACATGgttagttttttgtcacccaatttgtcgattt-----tatttgcctttattactttgatttctaatttctttagactgaatccatgtgatgttttgagtaataaaa

upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G64520.1 (Arabidopsis thaliana), 5'ss of exon 3
ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat
| || ||||||||||||||||| || || || ||||  ||||||||||||||||| || || |||||||||||| |||| ||||| |||   |||||| |||||   |       ||   | | |  |||| ||  | | |  ||||  | ||    ||  |   |  |   ||   |||  |||               
ACATTTATGAGCATGCTGTTGTTCTAAGCGTCAAAACCGAGGATCAAGATGCTTTTGAGAGAGATTTCTTCCAGCTGAAACCTTACTATGTGGATGCCAGgtaaagaaa---gaaccaactgtctgaacat-tatctttttcattttcttttggtctaacatatcttcttttcctctgcac-cag---------------

upper sequence: GLYMA08G08690.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv02s0025g02010.t01 (Vitis vinifera), 5'ss of exon 3
ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctg----aagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat
||||||||||||||||||||||||| ||||| || |  |||||||| ||||| || || ||||||||||| |||||||| ||||||||||||||| |  ||||| |  |||| |  |  |||    || || | ||  |  ||||| | |       || ||  | |   || | |   ||   |    || ||| |||||   
ATATATATGAGCATGCTGTTGTCCTAAGTGTCAAGACAGAGGATCAGGATGCGTTTGAGAGGGATTTCTTTCAGTTGAAACCTTATTATACAGATACAGGgtaattctttct-gctctgtttaagccatatttgaagttgcattttaaattaataataataattcaggtactgctaattaaaagagttctgtacagctcct---

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|192301273|gb|FG990193.1|FG990193
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|8284019|gb|BE021578.1|BE021578
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|213615022|gb|DB957060.1|DB957060
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|298194068|gb|HO040716.1|HO040716
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|12689998|gb|BG156334.1|BG156334
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|38193646|gb|CF922852.1|CF922852
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|298170815|gb|HO015791.1|HO015791
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGACGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|15663156|gb|BI700527.1|BI700527
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192303507|gb|FG998601.1|FG998601
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192326943|gb|FK019220.1|FK019220
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|7692387|gb|AW760495.1|AW760495
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|16106170|gb|BI893910.1|BI893910
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|15814178|gb|BI786453.1|BI786453
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|213601171|gb|DB964664.1|DB964664
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|208030702|gb|GD831176.1|GD831176
EST:     TCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: TCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|58018381|gb|CX705123.1|CX705123
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192299340|gb|FG988711.1|FG988711
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192317899|gb|FK009435.1|FK009435
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|213601151|gb|DB964658.1|DB964658
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|298180573|gb|HO025660.1|HO025660
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|13125434|gb|BG316004.1|BG316004
EST:     GCTTTCGAAAGGGATTTCTTNCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|17401304|gb|BM178086.1|BM178086
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192326357|gb|FK015889.1|FK015889
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|7588314|gb|AW704112.1|AW704112
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|298188986|gb|HO035711.1|HO035711
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|24205598|gb|BU964851.1|BU964851
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|6566729|gb|AW234361.1|AW234361
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
EST: gi|192294009|gb|FG987178.1|FG987178
EST:     GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTG                         CAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT
genomic: GCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttatt ... tttgttgcagCAATCGTCTTCCACCATCTCCTCAGGAGTACCCTATACTGGGTCTCAACCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATATATATGAGCATGCTGTTGTCCTTAGTGTGAAAATTGAGGATCAAGATGCTTTCGAAAGGGATTTCTTCCAGTTGAAGCCTTATTATACAGATGCCTGgtaacttattcttgtcccttttttttcacatataaatatatatttttactctgaagaaagctgaatcttcaaccaaagcaaacagtggacatctcctgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG