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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA

Basic information

species Glycine max
transcript GLYMA08G42170.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g47470.1 (Oryza sativa), 3'ss of exon 3
gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA---
                                                                                    ||  |  | |||| |||  ||     |    | | ||  |  | |||||||||||   | |||  | |  || ||   |    ||   ||     | |  |||||| |||| || ||||||||||| |||||||| ||| ||||||||||||| |||||||| |||||       || |  ||||| ||||||  ||| |||||    
-----------------------------------------------------------------------------------atggaaattctgttccttcccttgtgca----taatcaatatgtgttttccttgttcccttgtt--tctcactgtacattgaccttttctgaatattcacctgcagGATGCTTGTCTATGAATATGTCAACAATGGAAACCTAGAACAATGGCTTCATGGGGCCATGAGTGGG---GGCATCCTTACTTGGGAAAACCGTATGAAGATT

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 3
gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
                                                                                || ||| |   ||   | |   ||| ||     | || |||  | |   | |  ||||  | || |    || | |    |||    |   |||   | |    | |||| |||| ||||| ||||||||||| || || ||||||||||| ||||| ||||| || ||| ||||||| ||    ||||||||||||||||| ||||||
--------------------------------------------------------------------------------ttagtggttagtggtgtccaaatctttctt---tgtgtacatcatactatgtttttgtagtctattaaacttccatcc--tatcatctgacttgttatat----tccagGATGCTTGTATACGAATATGTGAATAACGGGAACTTAGAACAGTGGCTTCATGGTGCCATGCGCCAACATGGTGTTCTTACCTGGGAAGCCCGAATGAAA

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
                                                                                                                        ||     ||| || ||  |  ||        ||   || |  |  || |   |    |      |||||| |||| || ||||| ||||| || | ||||||||||||||||||||||||||| || ||| | ||||| || |  || || |||||||| |||||||||
---------------------------------------------------------------------------------------------------------------------gtgagtctcacttgtctttaatccatttgagcaattggattgtactgaatctaaatataatgatgaatgcagGATGCTTGTTTATGAGTATGTTAATAGTGGTAACTTAGAACAATGGCTACATGGAGCAATGCGGCAACATGGAAATCTCACTTGGGAAGCACGGATGAAA

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
                                                          | | ||   |  |     |  | |     |  ||||  ||||  | |   |      |||  |        ||    |     ||||    || |||  | |   |  ||  |||    | | |  |||||| |||| || ||||| |||||||| | ||||||||||||||||||||||||||| || ||| |  ||||| | || || || ||||| || || ||||||
---------------------------------------------------------gtgagtc---tgacttgtctcttatcagtctgaatgtactactaattt---agtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaa--tgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA

upper sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 4
gtaaacttggtg---ttcttaatg-catcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatt---------tgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
||||  || ||    || ||| ||   |   ||| |     || | ||||    |   ||  |  ||   |||    | | | | |||| || ||||   |||||||  ||  ||||    |  |      |  ||| ||   |      ||  | |  |||      ||| |||||     || |||         |  ||| ||||||| |||||||||||||||||||| ||||||||||| ||||| ||||| |||||| ||||| | || |  ||||| ||||| ||||| ||||| 
gtaagatttgttcactttttattgatgtggtaatttatttcattcctattcatttggcatgttggatgttatt----attatttattgtcat-gatgaagtactttttcgttgaaaaacaaagtacttttccaattcttttgcaatcttgtcgatctgatttgcctgggatgtggttatgtacttattattctttaatatagGATGCTGGTGTATGAATATGTGAACAATGGCAACTTAGAACAGTGGCTTCATGGAGCTATGCGCCAATATGGCAACCTTACTTGGGAGGCCCGCATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
                                          gtctgat  putative branch site (score: 4)
              tttttcctttattata  TA-rich tract