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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatatctttcactccctcctcttcaagtatctatcccccatgtgcctctgtgcatcttggtgggtagcttactggatttattttgactttttatagttctgtttgaatggttcttgttcaaaattaagttttatatatgttatgtttgacccagGTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG

Basic information

species Glycine max
transcript GLYMA10G43470.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 5
gtaaatatctttcactccctcctcttcaagtatctatcccccatgtgcctctgtgcatcttggtgggtagcttactggatttattttgactttttatagttctgtttgaatggttcttgttcaaaattaagttttatatatgttatgtttgacccagGTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG
|||||   || |||||   ||    ||  | ||  |||     ||| ||  ||||  | |  ||| ||   ||           ||| |     ||||  |  |||  | ||  | |   | ||  |||  | |   || |||| |       ||||||||||||||| ||||| || || || |||||| |||||||||||||||||
gtaaac--ctctcactttatctctctcttgcattaatc-----tgtaccagtgtgtgtgtgtgtgtgtgtgtt-----------tttaa-----tatatctaagttgtagtgtctatctgttaatgttatatgtctcat-tgtttttggaattccagGTGCTTTGTGTCCATGGTGGTCTTTCACCTGACGTTCGAACAATTGATCAG

upper sequence: GLYMA10G43470.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S207_36V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaaatatctttcactccctcctcttcaagtatctatcccccatgtgcctctgtgcatcttggtgggtagcttactggatttattttgactttttatagttctgtttgaatggttcttgttcaaaattaagttttatatatgttatgtttgacccagGTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG
                                              || | |  |  | |  ||  |||||    | | || | |||||||| ||||  |||   |  ||||          ||   | || | |  | ||  | || ||   ||||||| | ||||||||||| || || ||||| |||||||| ||||||||||||
-------------------------------------------aaggcttttaagagtttgagtctgtagcgatgtag-ttaagtttgacttgttattcttcctgtgtaatg----------aatgctgagatctgaacatcatctggtt---ccagGTGTTGTGTGTTCATGGAGGTCTGTCTCCAGACATTCGGACAATTGATCAG
















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|31464105|gb|CD406133.1|CD406133
EST:     GTACAGATGTGTTTGACTACCTAACTCTTTCTGCAATTATTGATGGAACT                         GTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG
genomic: GTACAGATGTGTTTGACTACCTAACTCTTTCTGCAATTATTGATGGAACTgtaaatatct ... tttgacccagGTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG
EST: gi|213601680|gb|DB980909.1|DB980909
EST:     GCAATTATTGATGGAACT                         GTGCTTTGTGTTCATGGCGGCCAAAT-TCATGACATACGAACAATTAACCA
genomic: GCAATTATTGATGGAACTgtaaatatct ... tttgacccagGTGCTTTGTGTTCATGGCGGCC-TATCTCCTGACATTCGAACAATTGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgaatggttcttgttcaaaattaagttttatatatgttatgtttgacccagGTGCTTTGTGTTCATGGCGGCCTATCTCCTGACATTCGAACAATTGATCAG
                                            gtttgac  putative branch site (score: 4)
              ttgttcaaaattaagt  TA-rich tract