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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctcaccgatctgcttcattttcaccgatgcgatttagaaaagaagatttgatttcgctgttcatggttatatgttgat...

Basic information

species Glycine max
transcript GLYMA18G46330.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46330.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os09g38740.1 (Oryza sativa), 5'ss of exon 1
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctc-tctctctctcaccgatctgcttcattttcac-cgatgcgatttagaaaagaagatttgatttcgctg-ttcatggttatatgttgat
 |||||||| |||  |||||||   |||||||||||||| |||||| |||||||| | ||| |||||||||||||||| ||||| ||||| || |||||||||| |||| |   | ||     |  |||     |    | |  | | | ||||   |       |   || || |   |||| | |    |     |     
CTACTGCCGGCCCGTGCACTGGCGCCGCAACACCGCCATCGCCATGTTCGGCGTCTTCCTCGTCTGCATCCCCATCGCCATGAAGTCCGCCGAGCTCGAGgtacgtctccccgccatccaaaccctaccacgtagtactagtcacgcgccatgcttgtcctttccgcgtatctggtcgagctgatccgaaatcgctagcc---

upper sequence: GLYMA18G46330.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G142013_T02 (Zea mays), 5'ss of exon 1
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctca----ccgatctgcttcattttcaccgatgcgatttagaaaagaagatttgatttcgctgttcatggttatatgtt-gat
 |||||||| |||   ||||||   || ||||||||||| |||||| |||||||| | |||||||||||||||||||||||||| ||||| || |||||||||    | | | || |  || | ||    | || |       || ||   |  |  |  | |    || |||||||    |||| |  | | | ||   | |||
GTACTGCCGCCCCGTCCACTGGCGCCGTAACACCGCCATCGCCATGTTCGGCGTCTTCCTCATCTGCATCCCCATCGCTATGAAGTCCGCAGAGCTCGAGgtatgcatgtgtatccccatcacccagactctgaccctgcgacttctcgttgtcgt-acatggttttgaggatttga----gctgatgcttgctctaccctagat

upper sequence: GLYMA18G46330.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G056606_T01 (Zea mays), 5'ss of exon 1
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctca----ccgatctgcttcattttcaccgatgcgatttagaaaagaagatttgatttcgctgttcatg-gttatatgttgat
 |||||||| ||    ||||||   || ||||||||||| |||||| |||||||| | ||||||||||| ||||| || ||||| ||||| || |||||||||    | | | || |  || | ||    | || |        | ||   |  | |     |     | |||||||  |     || ||   |  ||  |    
CTACTGCCGCCCGGTCCACTGGCGCCGTAACACCGCCATCGCCATGTTCGGCGTCTTCCTCATCTGCATTCCCATAGCCATGAAGTCCGCCGAGCTCGAGgtatacatgtgtatccccatcacccagactctgaccctacgatctctccttggcgtg-cacggtcttcaggatttgagcttatgcttgatatatcctagat----

upper sequence: GLYMA18G46330.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv15s0046g03680.t01 (Vitis vinifera), 5'ss of exon 2
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctcaccgatctgcttcattttcaccgatgcgatttagaaaagaagatttgatttcgctgttcatggttatatgttgat
 |||||  | ||||||||||||||| | ||||| |||||||| ||||  || ||  |||| ||||||||||||||||| |||||||| ||||| ||||||||         |   | | || |     |  || | |  ||    ||| |   || |  |      || ||  |||      ||   | | | |     |
GTACTGTAGGCCCAAGCACTGGAAGAGGAACACTGCCATTGCTATGGCTGGTGTTTTTCTTATCTGCATCCCCATCGCCATGAAATCTGCTGAGCTCGAGgttttcgctctttcttttttcccattttgcccttcgttcttgctgccgttaacatgttcatttcttgaattagtttttgaagtctgagatctctaaccgt

upper sequence: GLYMA18G46330.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv16s0100g01290.t01 (Vitis vinifera), 5'ss of exon 1
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctcaccgatctgcttcattttcaccgatg--cgatttagaaaagaagatttgatttcgctgttcatggttatatgttgat
  | ||| | ||||| ||||||||||||||||| |||||||||||| |||||||| ||||||| |||||||| |||||||||||||| || || ||||||||  |||||| || ||||||   |     |  |  |   ||   |    ||   ||||| |||        |    || ||| || ||  |||   |||  |
AAATTGCAGGCCCAAACACTGGAAGCGCAACACTGCCATTGCCATGTTCGGCGTCTTTCTCATTTGCATCCCAATCGCTATGAAATCTGCCGAGCTCGAGgtctctctctttcactctcttcttttggcagttaatcagttgataattgtgattgattttgaatccctatgtgtcatttgcttttgat--ttaatcgtttct

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|207756549|gb|GD729058.1|GD729058
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCACTGAACTCGAG                         CAACGGCCACA
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACA
EST: gi|21602260|gb|BQ612591.1|BQ612591
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|193534816|gb|FK491234.1|FK491234
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|9900615|gb|BE609583.1|BE609583
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|4296880|gb|AI442538.1|AI442538
EST:     CATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: CATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|4294407|gb|AI442186.1|AI442186
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|6848932|gb|AW351222.1|AW351222
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|207736244|gb|GD713523.1|GD713523
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|18041243|gb|BM309537.1|BM309537
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|19052986|gb|BM731653.1|BM731653
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACT-TGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|298189179|gb|HO037582.1|HO037582
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAGCTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|31466585|gb|CD408613.1|CD408613
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|18040544|gb|BM308838.1|BM308838
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|193687232|gb|FK630445.1|FK630445
EST:     GCGTCGTTCTCATCTGCATCTCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|4396918|gb|AI495915.1|AI495915
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCT
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCT
EST: gi|193379705|gb|FK344507.1|FK344507
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGT
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGT
EST: gi|7146837|gb|AW508759.1|AW508759
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|16280572|gb|BI944031.1|BI944031
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|16997051|gb|BM086423.1|BM086423
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|298179693|gb|HO024908.1|HO024908
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|208137763|gb|GD933765.1|GD933765
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|208055305|gb|GD854540.1|GD854540
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|6666053|gb|AW277512.1|AW277512
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|4313630|gb|AI460749.1|AI460749
EST:     GCGTCGATCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|19269127|gb|BM885383.1|BM885383
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|193385008|gb|FK351490.1|FK351490
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCC-TTCTCAACTCTGGT
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGT
EST: gi|27809186|gb|CB063608.1|CB063608
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|13479553|gb|BG508896.1|BG508896
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|15287669|gb|BI471560.1|BI471560
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
EST: gi|254328918|gb|GR833290.1|GR833290
EST:     GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAG                         CAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG
genomic: GCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctct ... gatctttcagCAACGGCCACATCACCCTGTTCGCCCCATCCCTTCTCAACTCTGGTGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACTGCCGTCCCAAGCACTGGAAGCGCAACACCGCCATTGCCATGGTCGGCGTCGTTCTCATCTGCATCCCCATCGCTATGAAATCCGCTGAACTCGAGgtacctctctctctctctctctctcaccgatctgcttcattttcaccgatgcgatttagaaaagaagatttgatttcgctgttcatggttatatgttgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaagaa