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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC

Basic information

species Glycine max
transcript GLYMA09G00970.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 14
lower sequence: AT4G22130.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
       | |  | | |  | | |  |    ||||  | || |         | ||    | |  |     ||  | ||  |   | ||||  |  | | ||  ||| || | || ||| ||  ||    || ||||||| ||||| ||||| ||||| ||||| || || || ||||||||||| ||| | ||||||||||||||| || | || |||
-----gtttcttttcatatttttagtagccaatgttgagcaat---------agccaatgtgagcaaaagcctgatttgagt--ttccttatgtaaaat-gtgctttgtgtatgtgtagCTCGAGGACGAGAGCAGAGCAATCACTAGTGAGATGGGCAACACCGCAGCTTCACGATATAGATGCTTTGTCTAAAATGGTTGATCCTTCTCTTAATGGC

upper sequence: GLYMA09G00970.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv10s0116g00100.t01 (Vitis vinifera), 3'ss of exon 14
gt-gagcctaccatac-ttgatgtaaagaaatcatgtccatcacttaaatgttt-atccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
|| || | |    ||| ||| || | |   ||  | |   |   | |||| ||| ||       | | |||| |      ||  | | ||||    |||   | |  |||||     ||||||||| | ||  ||||||| |||||||||||||| |||||||| || ||||| ||||||||||||||| |||| ||||||||||||||| |  | || |||
gtagaacatgtgctacattgctgaacacccatttt-tgtgttcttgaaatattttatagcattctttaatctcttgacattggtttgtttctatggttctcatcttcttttttgtgttttagTTCAAGAGTGAGATCAGAACAGTCACTTGTGAGATGGGCTACTCCCCAACTTCATGATATAGATGCCCTGGCAAAAATGGTTGATCCTTCCCTAAATGGC
















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|23731723|gb|BU764001.1|BU764001
EST:     TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG                         TTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctac ... gcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACTCCATGATATAGATGCCTTGGCCAAAATGGTTGATCCTACTTTGAACGGC
                     ttcttac  putative branch site (score: 2)
                                        tttttgc  putative PPT
                        ttacattcatttgtaa  TA-rich tract