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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtggtgtcattgttttctataacttggaacttcttaaataattgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT

Basic information

species Glycine max
transcript GLYMA02G42560.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
-------------gtatggtggtgtcattg-ttttctataacttggaacttcttaaataattgttgacaaagctttcgt-atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
             || | ||     | |   |||| | | ||||   || |      | ||| ||  | || | |  || || | | |||| ||| |||||||| | ||||||  | || |||||||| ||||||||||| ||||||||||| |  || || || || || ||||||||| | ||| | |
gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
-----------gtatggtggtgtcattg-ttttctataacttggaacttcttaaataattgttgacaaagctttcgt-atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
            | | ||     | |   |||| | | ||||   || |      | ||| ||  | || | |  || || | | |||| ||| |||||||| | ||||||  | || |||||||| ||||||||||| ||||||||||| |  || || || || || ||||||||| | ||| | |
gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatggtggtgtcattgttttctataacttggaacttcttaaataattgttgacaaa--gctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
       |       ||| |  ||| |  || | ||| ||   || ||    || ||  |  | | ||    |||||| |   || || || ||||||||| | ||||||||||| || || || || |||||||| || | |||||||||||| || ||||||||||| || ||||
-------gcaagtggtgtatgatatga--tgaatcttattggttattttgacactaacggtgtccatacaatttcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGTATTAAGCTCTTTGAGCAGTTCAAGTCATATGAAGGGCTATACTTTTTCCTAGGTTCAT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatggtggtgtcattgttttctataacttggaacttcttaaataat-tgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
||||| || ||| |||||| |  |  |  || |  || ||   |||| ||      | |  | | | | | | |||| |   || || || ||||||||| | ||||||||||| ||||| ||||| ||||||||||| | ||| || ||||| |||||||||||||| || ||||
gtatg-tgctgt-attgttgt--aagatgtgaattttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
gtatggtggtgtcattgttttct-----ataacttggaacttcttaaa----taattgttgacaaagctttcgt--atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
    |      ||||||| ||||     || |    || |  |||  |    || || |||     |||    |   | ||| |||  ||| |||||||||| |||||||||||||||||||   ||| ||||||| |||||||||||||  ||||| |||||| |||||||||| || || || |
----gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctataacttggaacttcttaaataattgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
                           tgttgac  putative branch site (score: 3)
            aacttcttaaataatt  TA-rich tract