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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttcactgatctcatgttataatttttttaggacttttgaaaacttgcatctgtaagactaaggcacctgctataatttttaactattgttttgtttccttttgcagGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCATCTAAAAATTATTAACAAGTTTAATCCATTCTCTGGATTCCAGAATCCCA

Basic information

species Glycine max
transcript GLYMA17G09080.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G09080.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g47860.2 (Oryza sativa), 3'ss of exon 4
---------------------------------------------------gtttttcact---gatctcatgttata------atttttttaggacttttgaaaacttgcatctgtaaga-ctaaggcacctg-ctataatttttaactat-tgttttgtttccttttgcagGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCATCTAAAAATTATTAACAAGTTTAATCCATTCTCTGGATTCCAGAATCCCA
                                                     ||| |||    ||||| |    | |      |||  ||| | | |||  | |  ||| || | ||  | ||    || |   || |  | |||||| |  ||     |  | |||| ||||| ||||| |||||||| ||||| |||||||||||  |  | ||||| ||| ||||||| || |||||||| || |||||||| || ||||| ||||| |
gttgcttcacctttttgaacttgaccctatatatgcctttcccctatcttttgtttccacaaaagatcttaatacaaaccaaacattcatttcgcaattt--atattttgtatgtatagtatctttttcatccatctgtgttgtttaacaagatgaacgatggcatttttcagGTTTATCCGATGTATAAGGCTTTCATTGAGCCAGACTTGCAGACAGCACATATAAAAATAATCAACAAGTTCAACCCATTCTCAGGGTTCCAAAATCCTA

upper sequence: GLYMA17G09080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g04650.t01 (Vitis vinifera), 3'ss of exon 3
gt-ttttcactgatctcatgttataatttttttaggacttttgaaaacttgcatctgtaagactaaggcacctgc-tataattttta----actattgttttgtttccttttgca--gGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCATCTAAAAATTATTAACAAGTTTAATCCATTCTCTGGATTCCAGAATCCCA
|| |||||||| ||   |||||| ||  ||||    ||||   |  |  ||     |||   || |   |      || |   ||||    |||  |  |  | || ||||| ||  ||| ||||||||||| || ||||||||||||||||||||  ||||||| ||| ||||||| || ||||| || ||||||||| ||||||| ||||| ||||
gtgttttcacttatactatgttagaaagttttctttactt--aatgaactgttatggtagcccttaattattcatataaagcatttattgtacttctcatcagctttcttttacacagGTATATCCTATGTACAAGGCTTTTATTGAGCCAGATCTACAAACAGCACATATAAAAATCATCAACAAATTCAATCCATTCACTGGATTTCAGAACCCCA
















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|11274567|gb|BF324909.1|BF324909
EST:     ATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACG                         GTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCAT
genomic: ATCGTGCCGGTCAAGAGCCTGAAGAAATAATCCATCAAATCTCTGAAACGgtttttcact ... ccttttgcagGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagactaaggcacctgctataatttttaactattgttttgtttccttttgcagGTGTATCCTATGTATAAAGCTTTTATTGAGCCAGATCTCAAAACAGCTCATCTAAAAATTATTAACAAGTTTAATCCATTCTCTGGATTCCAGAATCCCA
                         ttttaac  putative branch site (score: 2)
                                  ttgttttgtttccttt  putative PPT
                   tataatttttaactat  TA-rich tract