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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA

Basic information

species Glycine max
transcript GLYMA17G05410.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 2
gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattc-----taatattg--ccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA
                                                                         ||  |    ||||| ||         |  ||  ||||   | ||    || |  |   | | |||  | |  |||| |   |    |  |||     |  || ||   ||   ||| |||||||||||||||||||| |||||  | ||  | ||||||||| |||| || ||  || ||| |||||||||||| |||||||| || || || || ||||| |
---------------------------------------------------------------------gtgaaaactgcagctttaatcctaattgccacatccttttccaataatg-gtatgcacattggtgtaaaattatgaagacggcacatgtttgtttcctaattggtactgtatcacccatg-ctgcagGTTGGGTACATTGTGACATCTTGCTTATTGAATGAAAATAATGATTTCCTACGGATGGTTATAAATACAGTACGCAATGACATAATAGGACGGAATGAGA

upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagttt-cagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA
                                                                              |    |  ||| |    |||  |||   ||| |||||  | |   ||  |       |      |||   | | || ||      |  | |  ||  |||  || | | |||||||| |||||||| |||||  | ||||| ||||| || ||||||||| | | ||||||||||||||||||||| || ||||| |||||||| ||||| |
----------------------------------------------------------------------------ggaaccatgcattgtatccaagggtttgtatttgcagtttgtat---tattttatgctca------ctaccaaatttgcagg-----tattgaacttttcatccataatttcagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCTATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA

upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagt----aattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA
                                                                                               | | |||  |  |  ||    |||  ||  | |    | |   | |  ||   |  | |  || |      |  | |  ||  |||  |||| | |||||||| |||||||| |||||  | ||||| ||||| || ||||||||| | | |||||| |||||||||||||| || ||||| |||||||| ||||| |
------------------------------------------------------------------------------------------gaaccatgcattgtatctcaag--ggtttgtatttccaatttatattgt-ttcatgctccttaactaatttgcaggtattgaacttttcatccatgattacagGTTGGCTACATTGTTACATCTTGCTTGCTCAATGAGAACCATGACTTTTTGAAGTTGGCAATAAATACAGTGCGGAACGATATTATTGGTCGGAATGAGA

upper sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 2
gtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatcta-tagactgtgaaga-agtaattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA
                                                                                        | | ||| |||   ||| |   |||| ||| || | | |  ||    || |   |  |  | |        | ||| | | ||  |   |||| || |||||||| |||||||||||||| ||| |||| || ||||| || ||||||||| | ||||| || |||||||| |||||||||||||| ||||| || |||||||
----------------------------------------------------------------------------------------ttttgtgcagt---tcactgcaagtttattaactttcatcacattacaattggttggttcattacacttttattaactttcatcatattataattggctgcagGTGGGGTACATTGTAACGTCATGTTTACTCAATGAGAACCATGACTTTTTGAGGTTAGCAATAAATACTGTGCGCAATGATATTATTGGCCGAAATGAAA

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|209700087|gb|BW652959.1|BW652959
EST:     ACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAG                         GTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTC
genomic: ACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgtt ... atgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTCAGGTTGGCTATAAATACAGTGCGCAATGATATCATTGGTCGTAATGAAA
                            ttctaat  putative branch site (score: 2)
                      aagtaattctaatatt  TA-rich tract