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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatccttgtaattaagtccttgactgttgcagatagtgatattaaactaaaataacattcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA

Basic information

species Glycine max
transcript GLYMA09G30790.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 3'ss of exon 2
------gtatccttgtaatt--aagtccttga---ctgttgcagatagtgatattaaactaaaataaca--ttcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
      |  ||| | || |   || ||  | |   || ||||  ||   | |   |  || |  |      ||||  ||||||||| ||| || ||||| ||  | ||||| || ||||||||||| |||||| ||||||| || ||  | || |||||||| ||||| ||||| ||||||||
gtagtagattccatatagtaggaaatcggtaatttcttttgcttatgtggttgacacgctcactttctggtttctctttgcagCAAGTGTTTTCCATCGGGATCTTAAGCCCAAGAATATTCTAGCCAATGCTGATTGCAAGCTGAAGGTTTGCGATTTCGGCCTTGCCCGAGTGTCATTTAA

upper sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 3'ss of exon 3
------------------gtatccttgtaattaagtcct--tgactgttgcagatagtgatattaaactaa--aataacattcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
                    ||   | |  ||   ||||  ||| | |||       | ||||| ||  |   ||      |||  || |||| |||||||||||||| || ||||| || || || ||||||||||||||| |||||||| | || || |||||||| || || ||||| ||||| |||||
gttagtttctggttttacacattggtctctttcgatcctcatgatttttgttatagataatattgaaacacttaagggttctctgttttcagCTAATGTGTTTCATCGGGATTTGAAACCGAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAA

upper sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G18040.2 (Arabidopsis thaliana), 3'ss of exon 1
-------------------gtatccttgtaa--ttaagtccttgactgttgcagatagtgatattaaactaaaataacattcttct-tgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
                     || | |||    ||  |||| | |||| |    | | | |   | |   ||||     || |||  | |||| ||||||||||||||||| |||||||| |||||||||||||| ||  || |||||||  | || || || || || || ||||||||||| || |||||
gcgagtgccttggcttgagaaattcgtgtttccttttgtccattactgcttttcaaactcaatctgatggaaaacttttttattcgatacagCTAATGTGTTTCATCGTGATTTGAAGCCTAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAA

upper sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------gtatccttgtaattaagtccttgactgttgcagatagtgatattaaactaaaataacattcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
               || || ||  | ||  ||  |  | | |   | |  || ||   | |   |  |  |  | |  ||||||| |||||||||||||| || ||||| ||||| || ||||| ||||||||| |||||||  | || || ||||| || || || ||||| || || |||||
gttagtttctaaacagtctcttt-cacttgtgttatc-attatgatataaggttattgaagagctacgtctctgtttgtttgcagCGAATGTGTTTCATCGGGATTTGAAACCAAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAA

upper sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 2
----------------------gtatccttgtaattaagtc-cttgactgttgcagatagtgatattaaactaaaataacatt-cttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
                       || |||     ||   |  |||   |||     || |  |     ||  |||||   ||   ||||| ||||||||||||||||||| || |||||||||||||||||||| ||||||||  | |||||  | || || |||||||| || |||||||| || ||||| ||
gttggtgcttttcagagatattatagcctcaccgtttgtttgcttttatgtcctgaatggccact---aataaaaattttatggtttcttccagCAAATGTGTTTCATCGAGATTTGAAGCCAAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtccttgactgttgcagatagtgatattaaactaaaataacattcttcttgcagCAAATGTGTTTCATCGTGACTTGAAGCCAAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAA
                                   aaataac  putative branch site (score: 2)
                                         cattcttctt  CT-rich tract
                  atagtgatattaaact  TA-rich tract