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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT

Basic information

species Glycine max
transcript GLYMA01G38580.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttacta-gtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
              || | |||| |         ||  ||    | |||| | | |||    |||  |    |  |  |||  |  | ||     || | ||| |||| || ||||| ||||||||| | || |||||||| ||||| ||||| ||||| ||||||||||| || || ||  | |||||||||||||| || |
-------------gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
           ||||  || | |  | || || |  |||  ||||  || |    |  |||| |   |||       |     ||  ||     || | ||| |||| || ||||| ||||||||| | || |||||||| ||||| ||||| ||||| ||||||||||| || || ||  | |||||||||||||| || |
-----------gtatt-tgctacatttagtttaaccttccctttt--ttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 6
gtactgtttct-gtataatgttgccataagattca---tgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
   | ||||||  |      |  || |  |   ||     ||    |||||||| |   |||     |  |  |||     ||||||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |
--tcagtttcttatgccccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgtgaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G352837_T02 (Zea mays), 3'ss of exon 6
--------gtactgtttctgtataatgttgccataagattcatgttctat----tttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
        || | |||||| |||     | ||      | |     |  |    |||||||| |   |||     |  |  |||  |  ||||||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |
gtattcctgttcagtttct-tatgcccctccccctctgtaccaacccattggcatttattttcttccttcttggttctaattattgggaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 17
gtactgtttctgtataatgttgccataag-attcatgttctattttattttttgaattccacaattcatctataagaga---atcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
       |  ||      ||| |  |||  |||  ||||| |   || |  ||    ||| |  ||||  ||||  |      ||  ||  ||     || |  || |||| || ||||||||||| ||  | || |||||||| ||||| ||| | ||||||||||||||||| ||||| ||  | ||||||||||||||  | |
--gtaaatattgctc--cgttcctgtaaacatttttgttccaccctactgctttccctcccctgttcaagtatataacttttgtcaaacctgtggcacatctgtagGCTGCGAAAGAATATTCTGAACAACTAGGAGTTGATGCTTGCATAAAATTATTTGAACAATTCAAATCTTATGAGGGCCTCTACTTTTTCTTGGGATCCT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G591258_T01 (Zea mays), 3'ss of exon 10
--------gtactgtttct-gtataatgttgccataagattca---tgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
        || | ||||||  |      |  || |  |   ||     ||    |||||||| |   |||     |  |  |||     ||||||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |
gtattcctgttcagtttcttatgccccctccccctctgtaccaacccattggcatttattttcttccttcttagttctaattattgtgaaatcttggggg-acata---tgcagGCCGCGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGGCCTTTACTTTTTCTTGGGATCCT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G102756_T01 (Zea mays), 3'ss of exon 3
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT-------------
                                                   |||| |     ||  |  |||   | ||| ||    | ||||    | ||| | || || ||||| ||||||||| | || |||||||| | ||| ||| | ||||| ||||||||||| ||||| ||  | ||||||||||||||  | |             
---------------------------------------------------tgaaatt----atctaattattgtaaaattttggggg-acat---ctgcaggccgcgaaagaataatctgagcagctaggggttgatgcttccatcaaattatttgagCAATTCAAATCTTATGAGGGTCTTTACTTTTTCTTGGGATCCTATCTGAGCTCCAG

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G430947_T01 (Zea mays), 3'ss of exon 5
--------gtactgtttct-gtataatgttgccataagattca---tgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
        || | ||||||  |      |  || |  |   ||     ||    ||| |||| |   |||     |  |  |||     ||||||    | ||||    | ||| |  | || ||||| ||||||||| | || |||||||| ||||| ||| | ||||| ||||||||||| ||||| |   | ||||||||||||||  | |
gtatttctgttcagtttcttatgccccctccccctctgtaccaacccattggcatttcttttcttccttcttggttctaattattgtgaaatcttggggg-acat---ctgcagGCCACGAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATCAAATTATTTGAGCAATTCAAATCTTATGAGGACCTTTACTTTTTCTTGGGATCTT

upper sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 19
gtactgtttctgtataatgttgccataagattcatgttctattttattttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
           ||| |||  ||   |    |  ||||  |  || |||      |||||||| |||||  | ||  |   || ||||   |||  | | |||||||| ||||| |||||||| |||||||||||||| ||||| || ||||| ||||| || ||||| || ||||||||||||||||||||||||||  |||
-----------gtaaaatagtgttttg---tatatgtgattattgatt------attccaca-ttcataaaaaattgtggctcactaagtcatt-tgtgcagACTGCCAAGGAGTATTCTGAACAGTTGGGTGTTGAGGCATGTATAAAACTGTTTGAGCAGTTCAAGTCTTATGAAGGATTATACTTTTTCTTGGGGTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgaattccacaattcatctataagagaatcttactagtacatgatttacagACTGCTAAGGAATATTCTGAGCAGTTGGGTGTTGATGCATGCATTAAACTCTTTGAACAATTCAAATCCTATGAAGGATTATACTTTTTCTTGGGTGCAT
                               atcttac  putative branch site (score: 3)
                   atctataa  TA-rich tract