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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaataatctgtccaactttcctcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT

Basic information

species Glycine max
transcript GLYMA19G42990.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 8
----------------------------------gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaataatctgtc----caactttcc-----tcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                                   |  || |    | |      | ||  || |||||   ||     |  |  ||   |    ||| |   ||||    ||  ||||      |   ||  | |||||| | || |||||  ||||| | ||||||||||| || ||||| ||||| || ||||| ||||| ||||| ||  | |||||||||||||||
gtaattcacagttctagtcttgcccactccagatcttgtgtatgtgtgtatgcacactaaaatatctgtactttcacactgatcatgaagtcatgtaacatcttgtctgcacatgtttctggattttgcagATTATGGGATCTGGGACAGCAGCGATGTATTCATTCTTATGCTGTGCATACTGATTCAGTCTGGGCGCTTGCAAGCACTCCTTCGTTTAGTCATGTTTAT

upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 8
gtaa-tgcacacatatggagttattaccatttctgtttgttttgtt----------ttgttttgtgtttgac-----taataatctgtccaactttcctcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
||||   ||||  | |    |    ||||| ||  | | |  ||||           |||  |  |||||||       |||     |   | || | |   || || |||||| |||| |||||  | ||||| ||||||||||| || ||||| |||||||||||||||||||| ||||| ||  ||||| ||||||| || 
gtaaacacacagctctaacatctcaaccatctccctctctcatgttagcataaatgctgtggtaagtttgacatcatagatacatatttttatttactttgcagACTATGGGATCTAGGACAGCAGCGTTGTGTTCATTCTTATGCTGTGCATACTGATTCTGTTTGGGCACTTGCAAGCACTCCTGCATTTGGTCATGTCTAC

upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaataatctgtccaactttcctcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
||  || |    | |  | |  |    |  | || | |   ||  |  |||    | | |||  |      || || ||      ||| || |||||| ||||||||||  ||||| | ||| | ||||| || |||||||||||||||||||| |||||  ||| |||| |||||||||||||||||
gtc-tgtatttttcttaactagtacataactatgatagc--tgaatcatttcagttctaactggt------tctaaattcatgtttagACTATGGGATCTAGGTCAGCAGCGATGTCTTCATACCTATGCGGTGCATACAGATTCTGTTTGGGCGCTTGCATGCAACCCATCATTTAGTCATGTTTAT

upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 8
-----gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaat-aatctgtccaactttcctcata-------gGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
     | | |  | | || |   |||  |  |  || |  ||  |   ||| ||  |   | ||  | || || |||| || || || ||| |       |||| |||||| | |||||||| ||||| |||||||| ||||| || |||||||||||||| ||||||||||| ||||||||||||||||| |||||||||
atcacgcattcaatatatgtttcgtttatttc-cttataattaatccttttagtgcttcatgtggttgatcaacctgtacatctctcttcacatttcacagGCTATGGGATCTTGGTCAGCAGAGATGCGTGCATTCCTATGCCGTGCATACAGATTCTGTCTGGGCACTTGCAAGCACCCCAACATTTAGCCATGTTTAT

upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S28_153V6.1 (Physcomitrella patens), 3'ss of exon 6
------gtaatgcacacatatggagtta-ttaccatttctgtttgttttgtt----ttgttttgtgtttgactaataatctgtccaactttcctcata--gGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
      |  |    |   | |  | ||  ||| |   |  |      | ||     || |||| |  || |  |  ||||| ||    | | | ||||  |||| |||||  | || || ||| | ||  | ||||||||||| ||||| |  |||||||||||||| ||||| ||||| ||| |||| |||||||| |||
gtatgagctagttgccggtttataattgcttatctgattcgaccacctagtaagagttcttttctactt-atgagaaatctctcattttctgcacatacagGCTCTGGGACTTGGGGCAACAACGTTGCATTCATTCTTATGCGGTTCACATTGATTCTGTTTGGGCCCTTGCAAGCACGCCATCATTCAGTCATGTGTAT

upper sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S69_10V6.1 (Physcomitrella patens), 3'ss of exon 8
-----------gtaatgcacacatatggagttattaccatttctgtttgttttgttttgttttgtgtttgactaataatctgtccaactttcctcata----gGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
            ||||   | ||  | ||   |||     |  |  | ||| |  ||| | ||     | | ||  | ||  |   | |||| | |||    ||||||||||| |||| || ||| | ||  | ||||||||||||||||||||||||||||| ||||| ||||| ||||| ||  | || ||||| || |||
atttggtaaggttaatattc-cacgttgaaacattcttcctcgtagtggttgtaatttttcttcctactcattagaagtccctt--attttcataatatgcagGCTTTGGGATTTAGGACAACAACGCTGCATTCATTCTTATGCAGTTCATACAGATTCTGTCTGGGCTCTTGCAAGCACGCCTTCCTTCAGTCACGTGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgttttgttttgttttgtgtttgactaataatctgtccaactttcctcatagGCTTTGGGATATAGGTCAGCAAAGATGTGTGCATTCTTATGCAGTTCATACAGATTCTGTTTGGGCACTTGCCAGCACCCCAACATTTAGTCATGTTTAT
                         gactaat  putative branch site (score: 2)
                                           ctttcctcat  putative PPT
     ttttgttttgtttt  TA-rich tract