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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG

Basic information

species Arabidopsis thaliana
transcript AT3G19960.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 9
gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
                                                  ||    ||| |  |          | ||| ||  |||    || | ||||||||||||| ||||||||    ||||||||||||||||||||||| |||||||| || |||||||| ||  || |  ||||||| |
-------------------------------------------------gtgtccaatttatgtgattgacccatgttt-tactttg---tatgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCACTTAGGG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------------------gtagcttc-tttggatgattttat-ttgc----ttgatttctttcctttttaaac-atgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
                                                                 || |   |   || | | |||||| || |     | |    |||   || || |   || |    | ||||          |  || ||| | |    || | ||||||||||||| ||||||||   |||||||||||| ||||||||||| |||||||| || |||||||| ||  | ||  | || || |
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttgg---tatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 7
gtagcttctttggatga---ttttatttgcttgatttc-tttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
   | ||   ||||  |    || |||   ||||  |  |||    ||| |  |||  ||  |   || |  |||    |||  | |  |   | || | ||||||||||||| ||||||||    ||||||||||||||||||||||| |||||||| || |||||||| ||  || |  | ||||| |
---gttttgctggaaaaggtattcattcttttgagctagttttacatttcagtatgtgtccattttat-gtgattgacccttgttttacttggt-atgtgaacagTCTAGAGTAGTCCAATGCAACGAAGGGGAAAGGTCATATCATATATTTTATCAGCTATGTGCTGGAGCACCATCATCTCTTAGGG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 7
---------gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
          |   ||  |   |  ||| ||  || || || | | |   || | | |||| | ||| |   |||||| |  ||  || | || |     || | ||||||||||||| ||||||||   |||||||||||| |||||||| || |||||||| || |||||||| ||  | ||  | || || |
gacacatgaatgattttgtattacaattctaactgttttatgt-tctagattgtgatcatgttacatcag--ttgacactaatt--ttatttggt-----atgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCACATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
           | |    ||| |||   ||  |   ||  ||  |     |||||   | | | ||    || ||  |||| | |   ||  | | ||||||||||||||||||||||||| ||||| || |||||||||||||| ||||||||||| |||||||| ||| |||| || |||||||
-----------gtaattctttctttatctgtatctattgtttggtctgtttgattttctcataatgg--gttgttaattgtgtct---cttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: PP1S104_215V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------gtagcttctttggatg-atttt-------atttgcttgatttctttcctttttaaacatgattcattaacattgacattttttctttgtatgttga------------ctcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
                                                             | |  || ||||  || |||||       |   | | |  |  |  | |      | |   || || |    | |  |||| ||  ||  || | |            ||    ||   |||| ||||| || ||    || ||||| ||||||||||||||  ||||||||||||| |||||||| |||       |  |  |||
gtaagcactttcttacagtacttctatggttggtccaaaattgaattctatgattttgtgggcaatttttttgtgtgtatttttggagatagggggtgggatgttgacatcaaacgaaaccgtttatcatttcttatcttttatccatgattgctaagtggtgcaacttctttcgtttgtagTCGAGAGTCGTACAGCAAGCAGAAGGTGAAAGGTCATATCACGTTTTTTATCAACTGTGTGCTGGAGCTGATGAATCTTTACGAG

upper sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: PP1S228_18V6.1 (Physcomitrella patens), 3'ss of exon 8
gtagcttctttggatgattttatttgcttgatttctttcctttttaaacatgattcattaacat-tgacattttttctttgtatgt-tgactcattttaac------agTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
         |||         ||  | |  ||||||||       |   | |  ||| || ||| | ||  |||||| || | | | ||  ||  | |  |      ||||| |||| || ||    |||||||| ||||| || || |||||||||||||||||||| ||||| ||     | ||  | ||||
---------ttgatccggaaaatggggtgaatttcttttaaagcaagcaacgtgtcagtatcatcttacgctttttccttttgtttctgtttcggtgtggcgatttcagTCTCGAGTTGTACAGCAGGCTGAAGGCGAAAGATCTTACCATATTTTTTATCAACTTTGCGCTGGAGCCGACACAGCTTTGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacatgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
                                          ctcatttt  CT-rich tract
                      attttttctttgtat  TA-rich tract