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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA

Basic information

species Glycine max
transcript GLYMA05G04340.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os10g40590.1 (Oryza sativa), 3'ss of exon 8
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
                             | ||||       | |  |||   |  ||   || || |||||  | ||     || |   ||    ||||||| |    |||| ||||||||||||||| |||||||| || || || ||||||||||||||||||||||||||||| ||||| ||||||||    ||||||    |  |||| |
----------------------------gtatgcgcaaagcatataattcgcct--attgttagttttttgtagt-gcaaagcctaa---cgtactatttgatgatttgttaa-gGAGAAGCTTCCACCAACGGATTCAAGACTCAGGCCAGATCAGCGGCATCTAGAGAATGGGGAGTACGAAAAGGCTAACTCTGAAAAATTGCGCCTGGAGA

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os08g05870.1 (Oryza sativa), 3'ss of exon 7
gtataatgatgtattaaatcatta-ttcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
        |||| |  | |||| | | |       | |||   || | | |||    |||   ||  ||   | ||        || ||   |  |   ||| ||| |  | |||||| || || || || || |||||  |||| || ||||| ||||||||||||||||| || ||||| |||||||| ||   ||| || |  ||||||||| 
------gtatgtgtgtagtcatgaatactccacaagctttgaattgtttacttg-atatc---aagactcaatgat-------cctaatt--gaattgattggtcatgt-tcaaagGACAAACTCCCTCCTACTGATTCACGGCTAAGGCCAGACCAGCGGCATCTAGAGAACGGTGAATATGAGAAGGCAAACGCGGAGAAGCTGAGGTTGGAAC

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G061099_T01 (Zea mays), 3'ss of exon 8
gtata-atgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
||| | |||    ||  |   ||      || || ||| | ||   ||||       | ||  ||  ||  |  | |  |||||  | ||  |                  | ||||||||||| ||||| |||||||| ||||||||||||||||| ||||| || ||||||||||| ||||||||||| |||   |||||||   |  | || |
gtacacatggaacatacatatatcccataatctgagttctgttagctctta------acctaaaaggctacgacaca-tcttttacgctcttg------------------ttaagGAGAAGCTGCCACCGACGGATTCAAGGCTGAGACCAGATCAACGGCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGCCTCGAGA

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G409265_T03 (Zea mays), 3'ss of exon 3
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgtta-----tagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
                              || |   |      |   | | |  ||||  |     |  ||||     || ||| |  || |   |   | ||  | |      | ||||||||||| ||||| |||||||| ||||||||||||||||| || || || ||||||||||| ||||||||||| |||   |||||||   |  | || |
------------------------------gtacacatggaacataaatataacccatcattggacttccgttagttcttaacctataatgctaaggcacatttctacccttttgttaagGAGAAGCTGCCACCAACGGATTCAAGGCTGAGACCAGATCAACGTCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGTCTCGAGA

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G402653_T05 (Zea mays), 3'ss of exon 3
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
                             | ||  | | | | |   ||   |   |    |  ||  |   || ||  |||     |    | |       ||  ||||| | |||||| |||||||| || |||||  ||||||||||||| ||||| || ||||||||||| ||||||||||| || |||   || || |  ||||||||| 
----------------------------gtatggatctacatgtggattgccacataaaagtgtttggtaacta-agtttttgtccttaattgcttggccattcctggattca-gGAGAAACTTCCACCTACTGATTCACGGCTGAGACCAGACCAGCGCCACCTAGAGAATGGTGAATACGAGAAAGCGAATGCAGAGAAGCTGAGGTTGGAAC

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM5G875564_T01 (Zea mays), 3'ss of exon 8
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
                                |    |   | |   |  ||||| ||  ||  ||  ||||||  |||  ||||||         |||      | | |||  |||||  |||||||| |||||||| || || |||||||||||||| ||| ||||||| ||||| ||    ||||| |||   || || |   |  |||| |
--------------------------------gtaggtagatataggtcgttatg-atgcctcctttgttgttagcgccacttctga---------att--gctgctggtta--gGAGAGCCTTCCACCAACGGATTCAAGACTCAGACCAGATCAGCGACATGTAGAGAACGGGGAGTATAGTAAGGCCAATGCTGAGAAGCTGCGACTGGAGA

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggt-aatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
         | | || |   ||  ||  || |   |||| || | | |    ||   | |   ||  |||  ||||| ||| |||||||  | || || ||||| | ||||   ||||||  ||||| ||||| || || ||||| ||||||||||| |||||||| |||||||| ||||| |||||||| ||  | || |||||| |||| ||||
--------gtatgttcag--atggtttaatcttgtttttattctgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggat-gtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA

upper sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
gtata-atgatgtattaaatca-ttattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
||| | || ||||||| ||||| || ||  |||||| | ||| |||| | |||||||||| ||||||| | | |||||||  | |||||||||||||| |||||||||||||||| ||||||||| |||||||||||||| || || ||||||||||| || |||||||||||||| ||||| || ||||| |||   ||||||| | |||| || |
gtagagataatgtattgaatcaatttttttatgtgcatattcatttt-cctcttatgcatatctaattgtcttttatagctctgtctgatcccgggta-tttgatcacggattaa-gGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaattctttgttatagccttttctgatcccgggtaatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA
       tttgttata  TA-rich tract