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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatttagtactagtttgttgtgtttgatgagtctgttatctgacaagtgaccttatttccttcaaaacggtaattattttgatatactcatgtttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG

Basic information

species Glycine max
transcript GLYMA08G01750.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g03820.2 (Oryza sativa), 3'ss of exon 4
------------------------------------aaatttagtactagtttgttgtgt-----ttgatgagtctgttatctgacaagtgaccttatttccttcaaaacggt--aattattttgatatactcatgtttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                                      ||||  |  |   || |  | |     |||    | |   ||| |    |||       |||  ||   | | ||  |   | |  || |      |  || ||||| ||||| ||||  ||||||||||| ||||||||| | || |||||||| ||||||||||||| | | |  |||||||| |||||||| |||
gtaatgtgcagtgcatccctgtattaacttcttgctttatttgattttcacttatgatttgcgcattgccatgccatatatatcttcagtccgaaagtttttttgccagcagttgatccaatccgaaacgtctgttcttgtagGTCAAAGCAGTTGGAGAGGAAATGGGGATTGGATTTCTCGGAATTGGTTTTCAGCCAAAGTGGGCACTGAGTGACATACCAATAATGCCCAAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------aaatttagtactagtttgttgtgtt----tgatgagtctgttatctgacaagtgaccttatttccttcaaaacggtaatt-attttgatatactcatgtttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                                           |  || |||  |  ||||| |  ||    ||     | | |  || | |        || |||  | | |   | | ||  | |  || |     ||  || ||||| ||||| ||||  ||||||||||| ||||||||| | || |||||||| ||||||||||||| | | |  |||||||| |||||||| |||
gtaatgcgcactgcatccctgtattaacttcttgctttatgtgattttcagttatgatttgt-gcattgccatgccatatatatcttcagtccgaaagtttttttttttgccagcagttgatccaatccgaaacgtctattcttgtagGTCAAAGCAGTTGGAGAGGAAATGGGGATTGGATTTCTCGGAATTGGTTTTCAGCCAAAGTGGGCACTGAGTGACATACCAATAATGCCCAAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G111579_T01 (Zea mays), 3'ss of exon 3
aaatttagtactagtttgttgtgtttgatga-gtctgttatctgacaagtgaccttatttccttcaaaacggtaattattttga--tatactcatgtttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
  ||     | |  |  |   ||| || |    | |   || |  |  |  |  | | | |  | |        || |     |  | | |   |  ||  |||||||||| ||||  |||||||||||||| |||||| | ||| |||| || |||||||| |||| | | |  |||||||| ||||||||||||
--atgggaaaatgttaagaattgtatggtaccatattgcatttttcttgc-atttcagtgcaattagggtatgtatgaccccaaagtttgcctgttcttgcagGTTAAAGCAGTTGGAGAGGAAATGGGAATAGGATTTCTTGGGCTTGGCTTTCAGCCAAAATGGGCACTGAGTGACATACCAATAATGCCAAAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G23100.3 (Arabidopsis thaliana), 3'ss of exon 4
aaatttagtactagtttgttgtgtttgatgagtctgttatctgacaagtgaccttatttccttcaaaacggtaattattttgatatactcatgt-ttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                    ||  ||    ||    ||||    | | ||  || |   |||  ||   |  || ||      |||   |   | | | |||| ||||| ||||| ||||||||||||||||| || || || ||||| |||||||| || ||| |     | || ||||| || |||||||||
--------------------gtaatttcaaagataattatt--gccaatgctctcac--cctaaaacgtgacaaataaccaactatctacggatgtcacagGTAAAAGCAGTTGCTGAGGAAATGGGAATTGGTTTCTTAGGAATTGGCTTCCAGCCCAAATGGCGTCGGGAGGATATACCCATCATGCCAAAG

upper sequence: GLYMA08G01750.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 3'ss of exon 4
aaatttagtactagtttgttgtgtttgatgag-tctgttatctgacaagtgaccttatttccttcaaaac-ggtaattattttgatatactcatgttta-tagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
 |  ||| |  |  || | | || ||  |||  ||| |||   || | |  |     | | || | ||   ||| ||| | |    ||  |  ||||||  |||||||||| ||||| ||||||||||| |||||||| || || |||||||||||||| || ||||  || ||||| |||||||||||||| |||
-acattatttgtgtttagctttggtttttgaaatctcttaa--gataggatataccgtatgctacgaacttggttattgtctgctaatgtttttgtttaacagGTTAAAGCAGTTGCAGAGGAAATGGGGATTGGATTCTTAGGTATTGGTTTCCAGCCCAAATGGGCTATTAAAGATATACCTATAATGCCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtgaccttatttccttcaaaacggtaattattttgatatactcatgtttatagGTTAAAGCTGTTGCCGAGGAAATGGGAATTGGATTTTTGGGGATTGGTTTCCAGCCAAAGTGGGGAATCAAAGACATACCTATAATGCCAAAG
                                ttttgat  putative branch site (score: 4)
                          taattattttgatata  TA-rich tract