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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaatttgtttcttgactaatacttcccttcatacattgctgttgatgcattattaatgatcattatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG

Basic information

species Glycine max
transcript GLYMA02G01060.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g21820.1 (Oryza sativa), 3'ss of exon 12
gtcaatttgtttcttgacta--atacttccct--tcatacattgctgttgatgc--------attatta-atgatcattatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
|| |   ||     |||  |  ||| || | |  |||| ||||| | |||| |         || ||   ||  |  | ||   | |||||  |   ||| |||||||| ||||||||||| ||||| ||||||||||| ||  ||||||||||||||
gttataatgcacaatgaggaggatatttacatattcattcattgttattgaagtgcacagaaatcatggtattgttgtcatttgttcagGTCATTTCAGCAGGTGGACTTCATGTAGTAGGAACAGAACGTCATGAATCTCGCAGAATTGATAATCAG

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM5G880102_T01 (Zea mays), 3'ss of exon 2
gtcaatttgtttcttgactaatacttcc----cttcatacattgctgttga------tgcattattaa--tgatcattatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
|| |  | |  |  | |   | || |      ||  ||   |||||||| |       | | | || |  |||||| | | | | |||||  |   ||  ||||| || || |||||||| |||||||| |||||||||||  ||||||| ||||||
gttatatggcattataaaagaaacattgatagctctatctgttgctgttcagtgtagcgtagtgttcacgtgatcaattttatt-cagGTCATTACAGTAGGTGGGCTTCACGTAGTAGGAACAGAGCGCCATGAATCACGCAGAATTGACAATCAG

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 13
gtcaatt-tgtttc--ttgactaatactt---cccttcatacattgctgttgatgcattattaatgatcatta-tgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
|| | || |||| |    ||  | ||  |    |  |   |  |  |||||| || ||  || ||  || | |    |||||||| ||||||||||||||||| || || || || |||||||| ||||||||||||||||| || ||||||
gttagttctgttacagcagagcagtatgtgaatctctgtcaagtgtctgttgttg-atcgtttattctcctgaactgctgcagGTGGTGGAAGCTGGTGGACTTCACGTGGTGGGGACAGAGCGGCATGAATCACGTCGAATAGACAATCAG

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 14
gtcaatttgtttcttgactaatacttcccttcatacattgctgttgat--gcattattaatgatcattatga-----------ctgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
|| | ||   || |   | || ||     |  |   |  | |||  ||    || |    | ||   | | |           || |||||||||  ||| |||||||| ||||| || || ||||| || |||||||| ||||||||||| ||||||
gttagttcaattttc--caaacaccagtttgaacggaaggttgtcaatttatataaactgtaatttctgttatttctacattcctacagGTTGTGTCAGCAGGTGGACTTCATGTGGTGGGGACAGAACGGCATGAATCTCGTCGAATTGACAATCAG

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ08380 (Selaginella moellendorffii), 3'ss of exon 13
gtcaatttgtttcttgactaatacttcccttcatacattgctgttgatgcattattaatgatcat--tatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
                              | | |       |||  | ||| |||  |  ||||  | |   |||||||||| |  || ||||| || || ||  ||||||||||||| || ||||||||  ||||||||||||||
-----------------------------gttagaagccaaagtt--ttcatgatttgtcctcatagttttcttgcagGTTGTTGCTGCAGGTGGCCTTCACGTGATAGGCACAGAGCGCCACGAATCACGAAGAATTGATAATCAG

upper sequence: GLYMA02G01060.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ15249 (Selaginella moellendorffii), 3'ss of exon 13
gtcaatttgtttcttgactaatacttcccttcatacattgctgttgatgcattattaatgatcat--tatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
                              | | | |     |||  | ||| |||  |  ||||  | |   |||||||||| |  || ||||| || || ||  ||||||||||||| |||||||||||  ||||||||||||||
-----------------------------gttagaaacgaaagtt--ttcatgatttgtcctcatagttttcttgcagGTTGTTGCTGCAGGTGGCCTTCACGTGATAGGCACAGAGCGCCATGAATCACGAAGAATTGATAATCAG

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|19348856|gb|BM893388.1|BM893388
EST:     TGGAAATTGGAAAAGAATATAAAGTCTTCACTGAGGAAGAGAGGAAGAAG                         GTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCA
genomic: TGGAAATTGGAAAAGAATATAAAGTCTTCACTGAGGAAGAGAGGAAGAAGgtcaatttgt ... atgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttcccttcatacattgctgttgatgcattattaatgatcattatgactgcagGTTGTGGAAGCTGGTGGACTACATGTAGTAGGCACAGAGCGTCATGAATCACGTCGAATTGATAATCAG
                               tattaat  putative branch site (score: 2)
                             attattaatgatcatt  TA-rich tract