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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA

Basic information

species Glycine max
transcript GLYMA13G33390.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                                                        ||||| | || | |  || |   || |||   | || | |       | |    |  | ||  ||||  || | |||  | |||||||||| |   | ||||| ||| |  | || |||||||| |||||||| || ||||| ||||| ||||||||||| || ||||||||||| ||||||||
---------------------------------------------------------------------gtatatttttttacaatggaaatc--tggtata-agcttatctgtgtgcaaataa-attctaatacttat--ctttcaatt-tacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g36080.1 (Oryza sativa), 3'ss of exon 11
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagact-ccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
           ||     |  |    |  ||| |  |  |||         |||  |  | || ||||||  | |  | | | | | || |  | |||   |    |  |   ||| |||||  |  | |  ||  | |||  |||   |     || |||||| |     || || ||| |  | ||  ||||||| |||||||| | |||||| ||||| ||||| ||||| || ||||| ||||||||||| ||
----------gtaagaataaaagcgacacttaag--tgaaatttgttgtgctttagtgttgattatactaattgtccagagaaagtaccgaaattttgcagtgctaacat---acagtttatgttcatttgtatattcatt-ttctggct-----agATGAGGTATTCAAGGAAATTCAACCACTAATTAGATCAGTTCTTGATGGCTATAATGTTTGTATTTTTGCGTATGGTCAAACTGGATCAGGGAAAACATA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G323622_T01 (Zea mays), 3'ss of exon 4
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                                                 ||   | ||  ||| |  |        |||    ||||  |  || || | || | | ||         ||| |    |  |||  | ||| ||| || |   |||| || ||  |  | ||  ||||||| ||||||||||||||||| || || ||||| ||||| || ||||||||||| || |||||
----------------------------------------------------------------gtatatcttaagtatgttaatggtgcaatctaaa-atttaaaagttgtataattgaatattactcaccaagttttcttgcctaatt-tccagTTGAAGTATTCTCTGATATCCAGCCTCTGATCAGATCAGTTCTTGATGGGTTTAATGTGTGCATTTTTGCCTATGGTCAAACTGGTTCAGGAAAGACTTA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactcta-aatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                                |  || |||  || ||||   |   |  |  |||   |  ||| ||   || | | |   | ||| | | |  | ||    ||||| ||    |||||  ||  | |||||||||| | | ||||||||||| |  | || |||||||| || ||||| || || || ||||| ||||| ||||||||||||||||| || ||||||||
----------------------------------------------gtatgttgttttcttttaatttaaaagaaattgataa--tttaatatcacattttgtag---tgttataatctgatatt---ctgattatt----ctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 12
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggatt--ttttacactt-tattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
           | |  ||| |  || ||  |     ||  ||      |   ||||   || |  |       || |||          ||      |     | | |  | ||| | |  |||      ||| ||| | ||   |   | |  ||||||||| || | | | ||||||  | |  |  |  | ||||||||||||||||  ||||| ||||||||||| ||||||||||| || ||||||||||||||
----------gtgtgttcatctgttaccggttc-tgttatatatccttatgcttttcagttctgttttgtgtgatctatgcgagaattcatggtacatctcgagaaataatattatattgatatcaccaagttcatt-tgatattttggattcttgcagCTGACGTCTTTTCAGACATAAGACCGCTGGTTAGGTCAGTACTTGATGGGTACAATGTTTGTATATTTGCATATGGCCAGACAGGATCAGGGAAAACTTA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G18410.1 (Arabidopsis thaliana), 3'ss of exon 12
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                             |     ||||  ||    |  | |||||| | |  |||||   | ||   || |        ||     || |   |    |||     |||  || |||  |||||   |  | ||| |  |||||||||||| | | | || ||| || |  |||| |||||||| ||||| ||||  ||||||||||| ||||| ||||| ||||| || ||||||||||||||
----------------------------gtgttcttttgtttgcctgaggaatttttcttcaatatactttttgttgg-attggtgtgttcttgggactaatcaaaaaaattaa----tatacttatgtc-attgtatct--tttaattcttgcagCTGAGGTATTTTCAGATATAAAACCTCTTATTCGATCAGTTCTTGACGGGTACAATGTATGTATCTTTGCATATGGTCAGACAGGATCAGGGAAAACTTA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 12
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtg-ttgattgttattactct----aaatgat-gcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                                    ||||||||  | ||| |      |||||   | |   ||   |   ||  |    |||  | |  | ||| |  || |||| |  |||||  ||    ||||| | | ||||||||||| | ||||||  ||| ||||  ||||||| || |||||||| | |||||||||||||||||||||||| || |||||||| || || || ||
---------------------------------------------------gtttttcatccttatatt------ttata---atttggatccttgaatagatct-ctttcaagaaatcattataatgcttgactcatattatgcttggaaaatgtttgtagCTGAGGTGTTTTCTGACACTCAACCCTTGGTACGATCTGTTCTTGATGGCTATAATGTATGTATATTTGCTTATGGTCAAACTGGTTCGGGCAAGACATA

upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S34_101V6.1 (Physcomitrella patens), 3'ss of exon 13
gtttatttctatatactcaccatttgccattaggctttgaatggaaaaacattttttcattataatactacctatttatatagactccaatttcttgttatttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                                      ||  | |||| || |       |  ||   ||| |           | | |  |||| || | | ||| || || |||| | | | |   |   |  | |||  ||||| | |   |||| |||  | || ||||| || ||| | ||||| |||||||||||||| |||||||||||||| || || || || || || ||
------------------------------------------------------ttataatatagtatttttgtcgttcatgctctcaagaaatcgagcctcttggcttttaactcgt-att-ttctgatgatagatttaatgttggtttgttcagAGGAGGTTTTTCTAGACACACAGCCATTGATACGGTCTGTATTGGATGGATTTAATGTATGTATCTTTGCTTATGGCCAAACGGGGTCTGGAAAGACCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggattttttacactttattgttgtgttgattgttattactctaaatgatgcagCTGAGGTGTATGCTGACATACAAGCCTTTATACGATCAGTACTTGATGGGTTTAATGTATGTATATTTGCTTATGGCCAGACTGGTTCAGGGAAAACTTA
                                        ctctaaa  putative branch site (score: 3)
     ttttttacactttatt  TA-rich tract