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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttacttatctcacttcacaattgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G13370.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G010342_T01 (Zea mays), 3'ss of exon 9
gtgttacttatctcacttcacaattgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
          |||    ||   ||   |||  ||  || | ||    || |     |     |     |||   |    |  || |  ||||||  ||   ||  |    ||| |||   |||||||||||||| ||  | ||||||||||||||||| || |||||| | || || ||||| |||||||| ||  | || 
--------ggtctagtatcctcat-attgaatatatttcaattcataacacatatatgcacaacagaatacaaat--atttcgttttttgattg--tttgattggtgacacagGTGGAGAAATGATACTAATGTTATACTTGCTGATGAAATGGGTCTGGGGAAAACTATCCAATCTGTTTCCATGCTTGGCTTCCTTCAT

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 10
gtgttacttatctcacttcacaattgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
                        |    ||| || | || ||||| |   ||| |  | | ||| |||  |  ||   |   |||    ||||         |||||| |||||||   |||||||| ||||||||||| || ||||||||||| ||||| ||||||||||||||||| ||||||||||| ||| |||||
-----------------------gtatgcatggttgtatatttgtcaa---ggtatgttttaattttttggtgttc---taaatctgtgtattg---------cattttgcagCTGGAGAAATGATACAAATGTCATTTTAGCCGATGAAATGGGCCTTGGGAAAACTGTTCAGTCAGTATCAATGCTTGGTTTTCTGCAG

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G45000.1 (Glycine max), 3'ss of exon 10
gtgttacttatctcacttcacaattgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
                               |  |   ||  ||| || | |     | ||   | || | || | ||   | |||||             |   | |  ||| |||   |||||||| ||||||||||| |||||||||||||| ||||| ||||||||||||||||| || |||||||| ||| | |||
-------------------------------gtatgcatatctgtatatttg--tcaaggtacattttaattttttggt--gttctaaa----------tctgtgtatggcagTTGGAGAAATGATACAAATGTCATTTTAGCTGATGAAATGGGCCTTGGAAAAACTGTTCAGTCAGTATCGATGCTTGGTTTTCTACAG

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 10
--gtgtta-cttatctcacttcacaattgctgatgattatttacttgtctactcggtctta--tgtgattctttacttgtcggctcggtctaatgattggcttc-ctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
   || |   || | |   || | |||    ||| | | |  |||     | |     |||  | | ||  | || || | |  |   | || | ||  ||||| |||||||    |||||||   |||||||||||||| |||||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||||||||||
gtatgctggtttcttttgttttagaat----gatcagtttaaactaaaaaaatgtactttaaatataatattctaattttagcat--atatactaatcagcttctctttcatagaacagCTGGAGAAATGATACTAATGTTATTTTGGCTGATGAAATGGGTCTTGGCAAAACTGTGCAGTCAGTTTCTATGCTTGGGTTTTTGCAG

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S317_10V6.1 (Physcomitrella patens), 3'ss of exon 11
gtgttacttatctcacttcacaat--tgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
          | ||  | | ||||  ||  | | |    ||   |||  | | ||||| || |   | || | ||     ||    ||  || |||| ||  ||  |       | |||   || || || ||||| ||| | || ||||||||||||||||| || || ||||||||||| || |||||||| ||| | |||
------gaggtatcgttgcgcaatcatgtcgtttagagattgagtgtgga-taggtctgatattgatatt-atttcgaaccttttgctgttgcttgggttggttata-------gTTGGAGAAACGACACCAATGTTATTCTTGCGGATGAAATGGGTCTTGGCAAGACGGTTCAGTCAGTGTCGATGCTTGGATTTCTTCAG

upper sequence: AT2G13370.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: PP1S93_123V6.1 (Physcomitrella patens), 3'ss of exon 11
-----------------------------------------------------------gtgttacttatctcacttcacaattgctgatgattatttacttgtctactcggtcttatgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttc----------cagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
                                                            ||||| |      |  |     | ||   | |  | | |||  | |   ||      || | |    ||  | | |  | ||| |  |  |  ||     ||  | ||           ||| |||   || || || ||||| ||  | || ||||||||||||||||| || || ||||||||||| || |||||||| |||||||||
gtatgcaccaaattgcagcgattttgtcaacgtcacagtggcatattcactgaggacaaatgttagtggatagaaatagtggtggc-agtaacgagtcactgatgtcgccgagtgggtgagttaaggtaagtctggttttggtattctactgagcccttgttgctgttatgtgggtgaacagTTGGAGGAACGACACCAATGTTATCCTTGCAGATGAAATGGGTCTTGGCAAGACAGTTCAGTCAGTCTCGATGCTTGGATTTTTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgattctttacttgtcggctcggtctaatgattggcttcctttcattttccagCTGGCTTAATGATACTAATGTCATTTTGGCTGATGAAATGGGTCTTGGTAAAACTGTTCAGTCAGTTTCAATGCTTGGGTTTTTGCAG
                        gtctaat  putative branch site (score: 3)
                                     cttcctttcattttcc  putative PPT
                                          tttcatttt  TA-rich tract