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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACGTGTCTAACAATTTATCTCTTGGAGAACGTCAAATTGCTGCACAGTTTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaatggtcggacttgtcatttgaatcaacctctgtctttccttttgtccactcttctctctctctctctctctctccccccgaacctttaattt...

Basic information

species Glycine max
transcript GLYMA18G03340.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G03340.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g03470.t01 (Vitis vinifera), 5'ss of exon 3
ATACGTGTCTAACAATTTATCTCTTGGAGAACGTCAAATTGCTGCACAGTTTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaatggtcggacttgtc-----atttgaatcaacctct-gtctttccttttgtccactcttctctctctctctctctctctccccccgaacctttaattt
 |  || |||   | ||| || ||||||||||| ||| ||||||| || ||||||||||||||  | ||||| |||||||| ||||| |||||| ||||||||| ||| |  |   || ||||     | |  ||||     || ||  | | || |    |  || |  ||||| | |  | |         |  | |||     
-TTTGTTTCTGTTAGTTTGTCCCTTGGAGAACGACAACTTGCTGCTCAATTTCAAGAAATTCCTCTGGATCTACGTATGGTTGAAGCAGAGCGAGTTGGATgtatgtattcatttaacctgtctgaccactaaaatctttgcctagttgtgctttctaataaacctgcaatctctat-tggcccatagttttggggcttttg----
















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|209719677|gb|BW651051.1|BW651051
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACT
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACT
EST: gi|192333945|gb|FK024758.1|FK024758
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|254317274|gb|GR826219.1|GR826219
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|26056153|gb|CA799067.1|CA799067
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|213594444|gb|DB968000.1|DB968000
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTG
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTG
EST: gi|192330295|gb|FK019860.1|FK019860
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCT
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCT
EST: gi|151393659|gb|EV263534.1|EV263534
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|9264567|gb|BE352714.1|BE352714
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192326353|gb|FK015885.1|FK015885
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|21675436|gb|BQ627787.1|BQ627787
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|8402060|gb|BE057694.1|BE057694
EST:     GTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAAGA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTA-GA
EST: gi|151395671|gb|EV265548.1|EV265548
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATT
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATT
EST: gi|10709468|gb|BF009192.1|BF009192
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATCTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192332673|gb|FK025330.1|FK025330
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGTTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|209728075|gb|BW655308.1|BW655308
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCCACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192307669|gb|FK001613.1|FK001613
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAA
EST: gi|193729072|gb|FK665124.1|FK665124
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|254317273|gb|GR826218.1|GR826218
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|209700662|gb|BW670451.1|BW670451
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTG
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTG
EST: gi|192295877|gb|FG990901.1|FG990901
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|151403386|gb|EV273196.1|EV273196
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192323135|gb|FK016326.1|FK016326
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|16996701|gb|BM086073.1|BM086073
EST:     TTCAAGAAAATCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGG
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGG
EST: gi|209718436|gb|BW666248.1|BW666248
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTCGA                         TTTGATATGCTGAAGGCAACTGCAGTTG
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTG
EST: gi|151410317|gb|EV280132.1|EV280132
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGGTATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192333944|gb|FK024757.1|FK024757
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|8827627|gb|BE211357.1|BE211357
EST:     TGCAAGAAATTCCATTAGATCTTCGTATGGTGGGAGCTGAGCGAATTGGA                         T
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggca-
EST: gi|8827627|gb|BE211357.1|BE211357
EST:     TGCAAGAAATTCCATTAGATCTTCGTATGGTGGGAGCTGAGCGAATTGGA                         T
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggca-
EST: gi|26048921|gb|CA785374.1|CA785374
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|21889444|gb|BQ742657.1|BQ742657
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAA
EST: gi|9439956|gb|BE440468.1|BE440468
EST:     TACAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAAT
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAAT
EST: gi|193640636|gb|FK591397.1|FK591397
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|192303416|gb|FG995668.1|FG995668
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTA
EST: gi|151393162|gb|EV263037.1|EV263037
EST:     TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGA                         TTTGATATGCTGAAAGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
genomic: TTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAACTGCAGTTGACAAAATTCCCTCAGATTTAGAA
EST: gi|15815430|gb|BI787705.1|BI787705
EST:     TCAAGAAAATTC-ATTAGATCTTCGTATGGTGGAAGCTGAACGAATTGGA                         TTTGATATGCTGAAGGCAAC
genomic: TCAAGAAA-TTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaat ... ggtaatggcaGTTGATATGCTGAAGGCAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACGTGTCTAACAATTTATCTCTTGGAGAACGTCAAATTGCTGCACAGTTTCAAGAAATTCCATTAGATCTTCGTATGGTGGAAGCTGAGCGAATTGGAtgtaagtaatggtcggacttgtcatttgaatcaacctctgtctttccttttgtccactcttctctctctctctctctctctccccccgaacctttaattt

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccccc