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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaatactatagttttacccatggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT

Basic information

species Glycine max
transcript GLYMA08G19780.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G016457_T01 (Zea mays), 3'ss of exon 6
gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaa-tac-tatagttttacccatggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
                                      |   || ||   | | || || ||| |||| |   | || |      || |    |   || |  ||   ||| ||  ||  || |  |   | | ||||      || ||||| |||||  | ||   | | ||||  ||||||||||||||||| ||||| || ||| | ||||||||| || | |||||| || |||||||  | 
-------------------------------------gtaggtttatcatagtattcaagtacatataatagcatcctt------ttgaggcttctctggttcatccttttaattattatat-tactacccttcaatt-----tagGTTATCGGTGACTATTCCCTCTATCAGCACCAATGCTCTTGGTTATGGAGCTTTCCTAGGACTCTATGCTAACTTGCGTTATCAATTGCTATGTGGAGTA

upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G24690.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaatactatagttttacccatggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
                            |||  |    ||   || ||  ||  |   ||   | |  | |        | ||  |   | |  |   | | |  |  | ||  ||   ||  |||| |||   ||     |||| |||||||||| ||||||  | | ||||  |||||||||||||||||||| ||||||||||| ||||| ||| |||||||||| ||||||||||| |||
---------------------------gtcatcacatatcttctccttctatcataggattacaaatctcttgattcactcgggcagcatctctgctttttttccagctcatgcttaactac-ttgtgcctttgtt-ctgacagAGTATCTGTGACGGTCCCATCTATCAGCACAAATGCTCTTGGTTATGGTGCATTTCTTGGAATATATGCCAACTTGAGATATCAGCTGTTATGTGGATTT

upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0034g01370.t01 (Vitis vinifera), 3'ss of exon 6
gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaatactatagttttaccca--tggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
                                            | |||   || |  | | |    || || |||  |    | | |||  |  | |        || |||||  |   | ||  | |||||   || |   ||| |||||||| ||| |||||| |||||| |  |||||||||||||||||||| || |||||  | ||||| ||| |  ||||||| || || |||||  ||
--------------------------------------------ctttttgctggtagagaatcaccttatatccacttaaccgctaaaacaaatattttggagggaaatttattgtgataaatcattttcct--ttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCAAACTTACGATATCAGCTATTGTGTGGAGTT

upper sequence: GLYMA08G19780.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0034g01330.t01 (Vitis vinifera), 3'ss of exon 1
gtaagcagggttgaaacccaacttatgttcaatagcattcaattcatttaattgtttaatactatagttttaccca--tggttggttaaattatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
                                            | |||   || |  | | |    || || |||  |   || | |||  |  | |        || |||||  |   | ||  | |||||   || |   ||| |||||||| ||| |||||| |||||| |  |||||||||||||||||||| || |||||  | ||||| ||| |  ||||||| || || |||||  ||
--------------------------------------------ctttttgctggtagagaatcaccttatatccacttaactgctaaaacaaatattttggagggaaatttattgtgataaatcattttcct--ttttttgacagGTTATCTGTCACAATCCCAACTGTGAGTACAAATGCTCTTGGTTATGGTGCATTCCTTGGGCTCTATGCGAACTTACGATATCAGCTATTGTGTGGAGTT

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|192303440|gb|FG995678.1|FG995678
EST:     GCAGTACAGGGTGCGTTGTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAG                         ATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC
genomic: GCAGTACAGGGTGCGTTGTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAGgtaagcaggg ... ttgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC
EST: gi|13481224|gb|BG510567.1|BG510567
EST:     GTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAG                         ATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC
genomic: GTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAGgtaagcaggg ... ttgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC
EST: gi|26268061|gb|CA819124.1|CA819124
EST:     GCAGTACAGGGTGCGTTGTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAG                         ATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC
genomic: GCAGTACAGGGTGCGTTGTCAAACTCTTTGGCTAGTAAAAAGGAGGGGAGgtaagcaggg ... ttgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgagtgctatattaattttatctttgcatatgttgttcctgaattgtctgcagATTATCTGTGACAGTCCCAAGTGTGAGCAGTAATGCTCTTGGTTATGGTGCTTTTCTTGGAATTTATGCTAACCTGAGATATCAACTGTTATGTGGGTTT
           tattaat  putative branch site (score: 2)
         tatattaattttatct  TA-rich tract