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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctcacttctgctttgaccaaatctaggcacactgttaatttgcttttgatgcctttcatataatattacctaattcttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATGTTAGTTAATAATGTTGGAATGCTTGACATAGAAGATCCAATAACA

Basic information

species Glycine max
transcript GLYMA01G03890.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g07090.1 (Oryza sativa), 3'ss of exon 10
gtgctcacttctgctttgaccaaatctagg--cacactgttaatttgcttttgatgcctttcatat-aatattaccta-attcttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATGTTAGTTAATAATGTTGGAATGCTTGACATAGAAGATCCAATAACA
||    |    |  |  | |    |   |    | ||  || | |||||  | ||       |  | ||| |   ||| |||   ||  | |||| | | | ||| | ||  | || ||||||||||| ||||||||||| ||| | || || |||||||| ||||| |||||||| || ||||| || 
gtatggagaaatagtcagtcttctttatgatctataccattgagttgctacttatctgacatacctgaatctcttctacattgaattatttagGAAAGTTTGGTTAGGGTAGCTGTATGGTGCATTGGTGAGTATGGTGAAATGCTGGTGAACAATGTTGGTATGCTGGACATAGAGGAACCAATCACG

upper sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G60070.2 (Arabidopsis thaliana), 3'ss of exon 10
gtgctcacttctgctttgaccaaatctaggcacactgttaatttgcttttgatgcctttcatataatattacctaattcttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATGTTAGTTAATAATGTTGGAATGCTTGACATAGAAGATCCAATAACA
||   || |||   ||||   | |  |   |  | | | ||| | ||| | |         ||  |   |   ||     |||   ||||| ||||| || || ||| || | |||||||| || || |||| |||  |||| ||||| |||| ||||||||||||| |||||||||||||||| 
gtagacatttc---tttggttagacatttcctaaatttgaatat-cttgtaac-ttaggagtaagagggtcattatcatgtttgggcagGAAACTCTTGTGCGCGTTGCAATATGGTGCATAGGAGAATATGCTGATCTGTTGGTTAACAATGCTGGAATGCTTGACTTAGAAGATCCAATAACG

upper sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 10
---------gtgctcacttctgct--ttgaccaaatctaggcacactgttaatttgcttttgatgcctttcatataatattacctaattcttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATGTTAGTTAATAATGTTGGAATGCTTGACATAGAAGATCCAATAACA
         || | || |||  ||           |||  |    |   |||| |  | |      ||||| || || |||   |   | |||| |||||||    || || |||||  | || ||||||||||| || |||||||| |||||||| |||||||||||||||||||| ||||| || || ||||| 
aaaaaatctgttcccatttccactacccagtagtctctgagtgttcatataatctattctctcactctttcttagaagattgttttgatatttttatcagGAATGCCTTGTACGAGTGGCGGTCTGGTGCATTGGAGAATATGGTGAAATGTTAGTCAATAATGTTGGAATGCTTGATATAGAGGAACCTATAACT

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|209707485|gb|BW664944.1|BW664944
EST:     GATATACAGTACGAGCATTATACAGAGCATTTCAAATGTCAGCTGAACAG                         GAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATG
genomic: GATATACAGTAAGAGCATTATACAGAGCATTTCAAATGTCAGCTGAACAGgtgctcactt ... ttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATG
EST: gi|213606433|gb|DB962998.1|DB962998
EST:     GATATACAGTACGAGCATTATACAGAGCATTTCAAATGTCAGCTGAACAG                         GAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATG
genomic: GATATACAGTAAGAGCATTATACAGAGCATTTCAAATGTCAGCTGAACAGgtgctcactt ... ttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttaatttgcttttgatgcctttcatataatattacctaattcttttcatcagGAGACTCTAGTTCGAGTTACAGTGTGGTGCATTGGGGAGTATGGTGACATGTTAGTTAATAATGTTGGAATGCTTGACATAGAAGATCCAATAACA
                                    acctaat  putative branch site (score: 3)
                                          ttcttttcatc  CT-rich tract
                      tttcatataatattac  TA-rich tract