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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggcatgccattatttattagtctgttaatgagttctgatttgtaaatgggtgttcagtggactgctttcaacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG

Basic information

species Glycine max
transcript GLYMA12G08840.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g11880.3 (Oryza sativa), 3'ss of exon 6
---------------------gtatggcatgccattatttattagtctgttaatgagttctgatttgtaaatgggtgttcagtggactgcttt---caacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG
                      ||||  ||     | |  ||| || ||||  |   |  | | | ||| ||       |  |    |  |||   | |||| ||||| || |||||||| |||||||| || ||  |||| |||||||||||||| |||||||| || ||    ||  ||||||| |||||||||
tctggaacaaacacaggagcattatgagattttgatgtgcatt-gtttgttt-tagttgatcactagtatatctactgaccataactttttttgtgccacagGTGGGTCTTTCACTTTGCCCATCTTCGCCAACTTGCTGTATTAGTTCCTTACATACCTACAGAGAATCCTCAGCTGAGTGATACAGCTTACGAG

upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g11880.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------------------------gtatggcatgccattatttattagtctgttaatgagttctgatttgtaaatgggtgttcagtggactgcttt---caacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG
                                                                      ||||  ||     | |  ||| || ||||  |   |  | | | ||| ||       |  |    |  |||   | |||| ||||| || |||||||| |||||||| || ||  |||| |||||||||||||| |||||||| || ||    ||  ||||||| |||||||||
gtgagaaaaaaagaagtgttgatatacattgtatccttcatcatacgatctggaacaaacacaggagcattatgagattttgatgtgcatt-gtttgttt-tagttgatcactagtatatctactgaccataactttttttgtgccacagGTGGGTCTTTCACTTTGCCCATCTTCGCCAACTTGCTGTATTAGTTCCTTACATACCTACAGAGAATCCTCAGCTGAGTGATACAGCTTACGAG

upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 8
--------------------------------------------gtatggcatgccattatttattagtctg---ttaatgagttctg----atttgtaaatgggtg-----ttcagtggactgcttt---caacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG
                                             | | ||||  ||    | | | ||  |   || |||  |        || ||| ||| | |      || | |  |    |||   | |||||||||| ||||||||||| ||||| || || || |||||||| || ||||| || ||||||||||| ||    ||  |||||||||| || |||
gttagaaaatatgtggatacacagataccaccttttgttgaatgatctagcataacaccgatgagttgtgagattttgatggatctcaccctatgtgttaattgattcattttttaatcaaaacttttatgcgacagATGGGTCTTCCACTTTGCTCATCTCCGCCAACTTCCTGTTTTGGTCCCTTATATTCCTACAGAAAATCCTCAGCTGAGTGATACTGCATATGAG

upper sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 8
gtatggcatgccattatttattagtctgttaatgagtt-ctgatttgtaaatgggtgttcagtggactgctttcaacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG
|||    ||  | ||| ||||     | ||    |||| |||||| |||| |||     | ||||  |  | ||| ||||||||||||||||||||| ||||| ||||||||||||||||||||||| |||||||| ||||| || || ||| | |||||||||||||| |||
gtaccaaataactttagttatatcctttttttaaagttactgattagtaactgg-----ctgtgggtt--tctcaccagATGGGTTTTCCACTTTGCTCATCTCCGTCAGCTCCCTGTTTTAGTTCCATACATGCCAACAGAGAATCCAAGATTGCGTGATACTGCTTATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgttaatgagttctgatttgtaaatgggtgttcagtggactgctttcaacagATGGGTTTTCCACTTTGCACATCTTCGTCAGCTCCCTGTTTTAGTTCCTTACATGCCTACAGAAAACCCCAGACTACGTGATACTGCTTACGAG
             ttctgat  putative branch site (score: 3)
                                          ctgctttc  putative PPT
                  atttgtaaat  TA-rich tract