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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgatctcccatgaacatgaagatccatgtgtgactgtaactgttgtattttttcccccaattcaggtgttagaccatcaagataattatctaatttttgaggagatactaacaattcctttggcttcctatcaatttccaatcagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG

Basic information

species Glycine max
transcript GLYMA09G38430.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G38430.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0023g00800.t01 (Vitis vinifera), 3'ss of exon 5
gttagtgatctcccatga-acatgaagatccatgtgtgactgtaactgttgtatt----ttttcccccaattcaggtgttagaccatcaagataa--------ttatctaatttttgaggagatactaacaattcctttggcttcctatcaatttccaat--cagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG
|| | || | |    ||| |||| || ||     ||| | |||   | |  || |    |||      | | |   | || ||  | ||   |          || || | |   |||  |     |   |  || | ||  || | | |  ||||  ||   |||||||||||||| | |||||||||||||| ||||| || ||||| ||   ||| || ||||| || || || ||||||||  | || ||| |||||||||
gtaattgttgtttgttgagacattaa-attggcatgtcattgttgatatattagtgttgtttagttatagtgccattttttgataagcagtctgtacttccttttttccattccatgattaagattttgaatctcatatgtgttgcaaaccttttcttatgatagTCTATGCTTCTTCTGGATGCCTTCAACAAGGATAGAGCGTCTTTACCCCAACCCCTTCCAAACCCGCCCCCATTGGCACCCTTGCCAGTACTTGCTCCTG
















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|6566492|gb|AW234137.1|AW234137
EST:     GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA
genomic: GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAGgttagtgatc ... ttccaatcagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA
EST: gi|254336538|gb|GR842717.1|GR842717
EST:     GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAG                         TCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA
genomic: GAGCTTTAGAGGTTGTAGAGGAACTTAGAACTAAGAGAGCGGACAAGCAGgttagtgatc ... ttccaatcagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatttttgaggagatactaacaattcctttggcttcctatcaatttccaatcagTCTATGCTTCTTTTAGATGCCTTCAACAAAGATAGGGCATCTTTGCCTACACCTCTGCCAAATCCACCACCTTTGGCACCTCTTCCTGTAGTTGCTCCTG
               tactaac  putative branch site (score: 0)
                                            tttcc  putative PPT
                                      tatcaattt  TA-rich tract