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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcacacatatggagttattaccatttctgtttgttttgttttgtgtttgactaataatctgtccatctttcctcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

Basic information

species Glycine max
transcript GLYMA03G40360.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 8
---------------------------------------gta---atgcacacatatggagttattaccatttctgtttgttttgttttgt-gtttgactaataatctgtccatctttcc-----tcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                                       |||    || |  || |   |  |||    | ||         |  |   ||  | | ||   |  ||||  ||| ||||      |   ||  | |||||| | || |||||| ||||| | ||||||||||| || ||||| ||||| || ||||| ||||| ||||| ||  | |||||||||||||||
gtaattcacagttctagtcttgcccactccagatcttgtgtatgtgtgtatgcacactaaaatatctgtactttcacactgatcatgaagtcatgtaacatcttgtctgcacatgtttctggattttgcagATTATGGGATCTGGGACAGCAGCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTAT

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 8
gtaa-tgcacacatatggagttattaccatttctgtttgttttgtt----------ttgtg-----tttgac----taataatctgtccatcttt-cctcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
||||   ||||  | |    |    ||||| ||  | | |  ||||           ||||     ||||||    ||   |  | |   | ||| | |   || || |||||| |||| |||||| | ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| ||  ||||| ||||||| || 
gtaaacacacagctctaacatctcaaccatctccctctctcatgttagcataaatgctgtggtaagtttgacatcatagatacatatttttatttactttgcagACTATGGGATCTAGGACAGCAGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTAC

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
----gtaatgcacacatatggagttattaccatttctgtttgttttgttttgtgtttgactaataatctgtccatctttcctcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
    ||| |   |  |  | |    || || ||   |   ||  |  |||    | | |||  |  |   | ||| |||      || || |||||| ||||||||||| ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
gtctgtatttttcttaactagtac-ataactatga-tagctgaatcatttcagttctaactggttctaaattcatgttt------agACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 8
-----gtaatgcacacatatggagttattaccatt----tctgtttgttttgttttgtgtttgactaat-aatctgtccatctttcctcata-------gGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
     | | |  | | || |   |||  |  | ||    |   |   ||| ||  |   | ||  | || || |||| ||||| || ||| |       |||| |||||| | |||||||||||||| |||||||| ||||| || |||||||||||||| ||||||||||| ||||||||||||||||| |||||||||
atcacgcattcaatatatgtttcgtttatttccttataattaatccttttagtgcttcatgtggttgatcaacctgtacatctctcttcacatttcacagGCTATGGGATCTTGGTCAGCAGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTAT

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------gtaatgcacacatatggagttattaccatttctgtttgttttgttttgtgtttgactaataatctgtccatctttcctcata--gGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                   | ||     | |||    ||   ||||  |  ||  |  || |||| |  || |  |  ||||| ||  | | | | ||||  |||| |||||  | || || ||  | ||  | ||||||||||| ||||| |  |||||||||||||| ||||| ||||| ||| |||| |||||||| |||
gtatgagctagttgccggtttataattgcttatctgatt-cgaccaccta-gtaagagttcttttctactt-atgagaaatctctcattttctgcacatacagGCTCTGGGACTTGGGGCAACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTAT

upper sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------gtaatgcacacatatggagttattaccatttctgtttgttttgttttgtgtttg-actaataatctgtccatc--tttcctcata----gGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
            ||||   | ||  | ||   |||     |  |  | ||| |  ||| | ||   ||| || |   |||| |   |||| | |||    ||||||||||| |||| || ||  | ||  | ||||||||||||||||||||||||||||| ||||| ||||| ||||| ||  | || ||||| || |||
atttggtaaggttaatattc-cacgttgaaacattcttcctcgtagtggttgtaatttttcttcctactcattagaagtcccttattttcataatatgcagGCTTTGGGATTTAGGACAACAACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctgtttgttttgttttgtgtttgactaataatctgtccatctttcctcatagGCTTTGGGATATAGGTCAGCAGAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                         gactaat  putative branch site (score: 2)
                                  tctgtccatctttcct  putative PPT
          ttttgtttt  TA-rich tract