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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaaaggaacttgattatggctactgagagtttttattctctcatttattagcaatcacaaacattttttgatctcctttatgcctgatttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTCTCTAGATTTATGGAGTCTTGGTTGTATGTTTGCTGGGATG

Basic information

species Glycine max
transcript GLYMA17G17520.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G17520.2 (Glycine max), 3'ss of exon 4
lower sequence: AT2G23070.1 (Arabidopsis thaliana), 3'ss of exon 4
taaaaaggaacttgattatggctactgagagtttttattctctcatttattagcaatcacaaacattttttgatctcctttatgcctgatttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTCTCTAGATTTATGGAGTCTTGGTTGTATGTTTGCTGGGATG
|   | | |    | |  ||      |        |||| ||| | ||  |     | |   | | | ||     | ||   | | |  ||     | || || || || ||||| ||||| || || ||| | || ||||||||||| ||  ||||  ||||||||||||| |||||||||||||| |||
ttgcatgcattgagctcttgagattagttgaaacatattatctaacttcgtctagctgatgtatactattatcatttctcacttcatatttgatgagcagGTACTTTAAGGGTCCAGAGCTGCTGGTGGATTTACAGGACTATGATTATTCCTTAGACCTATGGAGTCTTGGGTGTATGTTTGCTGGAATG

upper sequence: GLYMA17G17520.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0129g00270.t01 (Vitis vinifera), 3'ss of exon 4
-----taaaaaggaacttgattatggctactgagagtttttattctctcatttattagcaatcacaaacattttttgatctcctttatgcctgatttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTCTCTAGATTTATGGAGTCTTGGTTGTATGTTTGCTGGGATG
      | |||      ||||| |  ||  ||   || || | |||   | | ||  ||||        | | | |  ||| |||| |        || ||| |||||||| ||||||||||| |||||||||||| | |||||||||||||||||||||||||| ||||| |||||||||||||||||||| |||
gtttggataaaaagttctgattttt-cttttgtatgtattgactctga-actgatgtgcaaatgt---tactctcttctcttctttctctacttcctgtttgcagATATTTTAAAGGTCCCGAACTTCTTGTTGATTTGCAAGACTATGATTACTCTCTAGATTTGTGGAGCCTTGGTTGTATGTTTGCTGGAATG

upper sequence: GLYMA17G17520.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S165_119V6.1 (Physcomitrella patens), 3'ss of exon 5
taaaaaggaacttgattatggctactgagagtttttattctctcatttattagcaatcacaaacattttttg-atctcctttatgcctgatttgcttg-tagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTCTCTAGATTTATGGAGTCTTGGTTGTATGTTTGCTGGGATG
  || ||  ||     |||   |     ||  |||  |  | | || | ||     |     | ||    || ||||| | |   |    ||||      || || ||||| ||||| ||||| || |||||||||||||| |||||||||||||| ||  | |||||  | || || |||||||| || |||
-gaacagtcacagttctataa-tgtaatgaactttactgattttatcttttgtatgtttagtagatacgatgcatctcatcttcacagtttttgggaaacagGTACTTCAAGGGTCCTGAGCTGCTGGTTGATCTTCAAGATTATGATTACTCTCTCGACATGTGGAGCTTGGGGTGCATGTTTGCCGGCATG

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|18734981|gb|BM528497.1|BM528497
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|9564123|gb|BE473632.1|BE473632
EST:     GCAGAGTTCTATCATCCTGNGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|21887281|gb|BQ740494.1|BQ740494
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|17963627|gb|BM270374.1|BM270374
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|13478623|gb|BG508028.1|BG508028
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAG                         ATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|18038926|gb|BM307220.1|BM307220
EST:     GCAGAGTTCTATCATCCTGNGAAAGAATATAATGTTCGTGTGGCATCAAG                         ATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|14260055|gb|BG882963.1|BG882963
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|9565463|gb|BE474972.1|BE474972
EST:     GCAGAGTTCTATCATCCTGNGAAAGAATATAATGTTCGCGTGGCATCAAG                         ATATTTCAAAGGTCCTGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
EST: gi|254330876|gb|GR842141.1|GR842141
EST:     GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAG                         ATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC
genomic: GCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgtacatttgc ... ttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattagcaatcacaaacattttttgatctcctttatgcctgatttgcttgtagATATTTCAAAGGTCCCGAGCTTCTTGTTGATCTTCAAGACTATGATTACTCTCTAGATTTATGGAGTCTTGGTTGTATGTTTGCTGGGATG
                                      gcctgat  putative branch site (score: 4)
                                            tttgctt  CT-rich tract
               aaacattttttgat  TA-rich tract