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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATCAGGCTTTAGCTTTACATGTGATTTGAGTGATAACATTGCTGCACCCTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgtttggacaaagttggtttctcttgatcgctgcttacttttttaattccggatgttggtattatgatagtacaatatactgtttgcatttgcttgacttgtctctatttttttttttgcag

Basic information

species Glycine max
transcript GLYMA12G01200.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G01200.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g38980.3 (Oryza sativa), 5'ss of exon 6
---TCATCAGGCTTTAGCTTTACATGTGATTTGAGTGATAACATTGCTGCACCCTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgtttggacaaagttggtttctcttgatcgctgcttacttttttaattccggatgttggtattatgatagtacaatatactgtttgcatttgcttgacttgtctctatttttttttttgcag
    |  | ||| |||| |||||||||||||||||||| |||||||| || || ||||| || |||||||||    ||  |||  ||||||| ||||| || |||| |          | |||     ||    |   | |    |||  |  |   |  ||     |   ||||||   |  |    || || ||                                  
AATGCTACGGGCATTAGTTTTACATGTGATTTGAGTGACAACATTGCAGCGCCATGGCCATCATCATCATCTG---TTCAATCCTTGTCACTTTGTGCTCCAGgtaaggtgacatttcaggtttagcactagaaaaaacagtgagcttcgtacaacacaaat-----tgacatgatacccc--tcctttggtttcag---------------------------------

upper sequence: GLYMA12G01200.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G162251_T02 (Zea mays), 5'ss of exon 5
---TCATCAGGCTTTAGCTTTACATGTGATTTGAGTGATAACATTGCTGCACCCTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgtttgga--caaagttggtttctcttgatcgctgcttac--ttttttaattccggatgttggtattatgatagtacaatatactgtttgcatttgcttgacttgtc---tctatttttttttttgcag----
    |  ||||| ||||||||||||| ||||||||||| || ||||| ||||| ||||| || ||||| |||    |   |||  ||||||| ||||| || |||| | |   | |  | || |||| |       |        |||  ||||  || |    |  |   | | |  ||  |  || ||  ||  | |   |  ||| ||  ||   |     |  | ||||| |     
AACGCTACAGGCATTAGCTTTACATGCGATTTGAGTGACAATATTGCAGCACCATGGCCATCCTCATCTTCTG---TCCAATCATTGTCACTTTGTGCTCCAGgtaagagcaggcattctaatttgggtcacaaaaacaatacactacaattttcgaaataacaacatgattctcactatttt-taacatgttgagtactagtttttgtctaatcacattggcatcctcttttggattcag

upper sequence: GLYMA12G01200.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G30700.1 (Arabidopsis thaliana), 5'ss of exon 6
---TCATCAGGCTTTAGCTTTACATGTGATTTGAGTGATAACATTGCTGCACCCTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgtttggacaaagttggtttctcttgatcgctgcttacttttttaattcc--ggatgttggtattatgatagtacaatatactgtttgcatttgcttgacttgtctctatttttttttttgcag
    |||||||||  |||||||||||||||||||  || ||||||||||| || ||||| |||||||| ||    | |   ||| |||| || ||||| |||||||     ||   |    |     | |  |  ||  | || | | ||  |  | |  | |   |   |   | | | | ||| | |   ||||| |||   | | |    | ||||||   | | ||||
AACACATCAGGCTACAGCTTTACATGTGATTTGACAGACAACATTGCTGCTCCATGGCCATCTTCATCGTCAATGTCT---TCTTTGTCTCTATGTGCTCCTGgtaatcactt---ctctctctacctgttctcttc-ttactcattgttggagcttccagaaaactaaaaagtttaaattgcaaaaaaagttttgc-tttatcttattcaattttattttaaatat-gcag

upper sequence: GLYMA12G01200.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0094g00050.t01 (Vitis vinifera), 5'ss of exon 4
---TCATCAGGCTTTAGCTTTACATGTGATTTGAGTGATAACATTGCTGCACCCTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgtttggacaaagttggtttctcttgatcgctgcttacttttttaattccggatgt-tggtattatgatagtacaatatactgtttgcatttgcttgacttgtctctattttt-ttttttgcag---------------------
   ||| ||||||| |||||||| ||||| ||||||||||| ||||| || || ||||||||   |||  | ||| || | ||  |||| || ||||| || ||||  || |||   ||   |  ||| | || ||  |  | |   || |||  |  |      |    ||||| |  |    | |   ||       |       |||| || || |   ||| || | |                     
AATTCAACAGGCTTCAGCTTTACGTGTGACTTGAGTGATAATATTGCAGCTCCATGGCCTTC---ATCGACCTCAATTTCGTCCTTGTCTCTTTGTGCTCCGGgtaactgattgacaaagaatcatttttgttcatttcctcatttgttgttatattagatcaaataaacttatggtttttatctttgaagtgctatcattacaagtttgtttcaatgtacatttcttactgatcacttatcaaaatttgcag

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|51343854|gb|CO984587.1|CO984587
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... ttttttgcagAGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG
EST: gi|208140674|gb|GD938712.1|GD938712
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... ttttttgcagAGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG
EST: gi|19269577|gb|BM885833.1|BM885833
EST:     CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTG                         AGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG
genomic: CTGGCCTTCTTCATCATCTTCATTTGCATCTATGTCACTCTGTGCACCTGgtatgtgttt ... ttttttgcagAGATGTCATTACCTGCTCTCCCAACTTCTTCTCAGACATTAAAAAATAATG