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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagataactaaattttttatgagaaaatctgtttctttctctttatctgattaacacatttcaatctcaaatcacatatgtaacaatgaaacactgttggcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTACTGGTTTCCTTGCGTGTCTCCCATCTCATCTTCAATAGGAGTTGATTCCT

Basic information

species Glycine max
transcript GLYMA08G42650.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G42650.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00110.t01 (Vitis vinifera), 3'ss of exon 3
gtaagataactaaattttttatgagaaaatctgtttctttctctttatctgattaacacatttcaatctcaaatcacatatgtaacaatgaaacactgttggcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTACTGGTTTCCTTGCGTGTCTCCCATCTCATCTTCAATAGGAGTTGAT-TCCT--
                                ||    || || ||     || ||    |   ||| |  | |   ||   |    ||||||| ||||||| |  |||||||||| ||||||||||||||| |||| || |||||||| | ||| |||||||||||||| || |  ||| |  |||   || |  |||||| |||| | ||  
--------------------------------gtaagattttcgttgatc-atcaatcagtcctaatattcattttaattgatgctcatgaaactctgttgggtgatgcagGAAGGTCTTGCAATGATTGATAATGGTCACAGAGATGGCAAACGCCGGTACTGGTTTCCCTGTGCATCTTCACTCT---CTGCTGTAGGAGCTGATATTCTCA

upper sequence: GLYMA08G42650.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00070.t01 (Vitis vinifera), 3'ss of exon 6
gtaagataactaaattttttatgagaaaatctgtttctttctctttatctgattaacacatttcaatctcaaatcacatatgtaacaatgaaacactgttggcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTACTGGTTTCCTTGCGTGTCTCCCATCTCATCTTCAATAGGAGTTGAT-TCCT--
                             |  | || ||  |  |||||| || |     |   ||| |  | |   ||   |    ||||||| ||||||| |  |||||||||| |||||||||||||||||||| || |||||||| | ||| |||||||||||||| || |  ||| |  |||   || |  |||||| |||| | ||  
----------------------------gtaagatttttgttgattatct-atcag----tcctaatattcattttaattgatgctgatgaaactctgttgggtcatgcagGAAGGTCTTGCAATGATTGATGATGGTCACAGAGATGGCAAACGCCGGTACTGGTTTCCCTGTGCATCTTCACTCT---CTGCTGTAGGAGCTGATATTCTCA
















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|7478531|gb|AW666302.1|AW666302
EST:     TGTCATGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTCGAT                         GAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTAC
genomic: TGTCATGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTCGATgtaagataac ... gcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTAC
EST: gi|6847785|gb|AW350075.1|AW350075
EST:     TGTCATGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTCGAT                         GAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTAC
genomic: TGTCATGGAGTTCTGGCCGTGCCATCGATGCCCTTGATACATTACTCGATgtaagataac ... gcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacatttcaatctcaaatcacatatgtaacaatgaaacactgttggcttgtgcagGAAGGACTTGCAATGATTGATGATGGCCATAGAGATGGTAGACGGCGGTACTGGTTTCCTTGCGTGTCTCCCATCTCATCTTCAATAGGAGTTGATTCCT
                       atgtaac  putative branch site (score: 3)
                     atatgtaa  TA-rich tract