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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCTTTCCCTACATGTTTGTCTGTAAACAACGTTGTCTGCCATTTCTCTCCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggctttcaatgcatgaaatttgtgatgagtggtcggagattggagtttgtggttttttatactacttggaagttgatgtttgtttctttggttggttgcag

Basic information

species Glycine max
transcript GLYMA07G18500.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G18500.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0217g00020.t01 (Vitis vinifera), 5'ss of exon 3
TTGCTTTCCCTACATGTTTGTCTGTAAACAACGTTGTCTGCCATTTCTCTCCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaag-gctttcaatgcatgaaatttgtg--atgagtggtcggagattggagtttgtggttttttatactacttggaa--gttgatgtttgtt------tctttggttggttgcag
|||| || || || ||  | ||||| ||||||  |||||| ||||| ||||| || |||||||||||| ||||||||||||| |||||||| || ||||||||||  || | || ||      ||| |   ||| ||  ||   | ||   |||  |     || | || |    | |     |   ||| ||      | |||  ||   |  ||
TTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCTCCCCTTGCCAGTGACGAGACAGTGTTGGAAGATGGTGATATGTTAAAAATgtaagcactgttaaagctatttctttttagtatgggttatctatgcttatggtt-ataaaagttgaaaccaagcagtatgacaggcttttattgatgagtttttatttaaatatag
















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|193421106|gb|FK391351.1|FK391351
EST:     GAAGGTGATATATTGAAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCC
genomic: GAAGGTGATATATTG-AAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCC
EST: gi|193476068|gb|FK441365.1|FK441365
EST:     GTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: GTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|193556807|gb|FK516076.1|FK516076
EST:     GTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: GTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|213591493|gb|DB955757.1|DB955757
EST:     CACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCC
genomic: CACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTG-AAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCC
EST: gi|192298267|gb|FG991729.1|FG991729
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|207737002|gb|GD710417.1|GD710417
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|192303104|gb|FG994222.1|FG994222
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|254325005|gb|GR834430.1|GR834430
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|192297830|gb|FG988328.1|FG988328
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
EST: gi|7147473|gb|AW509395.1|AW509395
EST:     CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAAT                         TGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA
genomic: CCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggcttt ... ttggttgcagTGATATGGCATGTCATATAGATGGATTCATTGCTGCCGTAGCTCACACCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCTTTCCCTACATGTTTGTCTGTAAACAACGTTGTCTGCCATTTCTCTCCACTAGCCAGTGACGAGGCAGTGTTGGAAGAAGGTGATATATTGAAAATgtaaggctttcaatgcatgaaatttgtgatgagtggtcggagattggagtttgtggttttttatactacttggaagttgatgtttgtttctttggttggttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG