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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattttttgcgtttctttcggagatagcttcagagctattcttagtggtgtttgattcagatttctctttatggtaaaatggttcttacagATTTGATCAGTTCCCACTGTCTCCCTTAACGTTAAAAGGAATTGAGGATGCTGGATTTAAGACAATGACTGTTGTTCAGGAGGCTACTCTTCCTCTCATT

Basic information

species Arabidopsis thaliana
transcript AT5G08620.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08620.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G041732_T01 (Zea mays), 3'ss of exon 1
-gtacattttttgcgtttctttcggagatagcttcagagctat-tcttagtggtgtttgattcagatt-tctctttatgg---taaaatggttcttacagATTTGATCAGTTCCCACTGTCTCCCTTAACGTTAAAAGGAATTGAGGATGCTGGATTTAAGACAATGACTGTTGTTCAGGAGGCTACTCTTCCTCTCATT
   ||   |||| | |   |     ||||   | |  |    | | |  ||  ||| |  |  | | | | || | ||||   |    |  || | |||| |||||| | | |||  | ||||||||  |  | |||||  || ||| |||||| | | |    ||||||| |||||||||||||||||||||| | || 
taaactgcttttccctaaataattcagatttgtacgaaatggtatatgcgtcatgtatagtctatactatatcctgatggatgttctttcattttgacagGTTTGATGAATGCCCGTTATCTCCCTTGTCACTGAAAGGTGTTAAGGCTGCTGGGTATGAACGGATGACTGCTGTTCAGGAGGCTACTCTTCCTATTATA

upper sequence: AT5G08620.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G06240.1 (Glycine max), 3'ss of exon 1
gtacatt-ttttgcgtttctttcggagatagcttcagagctattcttagtggtgtt-----tgattcagatttctctttatggtaaaatg-gttcttacagATTTGATCAGTTCCCACTGTCTCCCTTAACGTTAAAAGGAATTGAGGATGCTGGATTTAAGACAATGACTGTTGTTCAGGAGGCTACTCTTCCTCTCATT
 || ||   | ||  | | |||      ||   ||   ||| |  |  ||  || |     ||  | |    | |||   |  | | ||| |||    ||||||||| || |   || | || ||  |  | ||||||||| |  |||||||||||| | ||| |||||| |||||||||||||||||||||||  | |||
-tatatgactctgaatatatttgaatcgtattatccatgctttagtatgttatgctgctattgtattatgaatgtctgatttttgagatgtgttgccgcagATTTGACCAATGTTCAATCTCCCCACTGTCATTAAAAGGAGTCAAGGATGCTGGATATGAGAAAATGACGGTTGTTCAGGAGGCTACTCTTCCAGTAATT

upper sequence: AT5G08620.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G02880.1 (Glycine max), 3'ss of exon 1
---------gtacattttttgcgtttctttcggagatagcttcagagctattcttagtggtgtttgattcagatttctctttatggtaaaatggttcttacagATTTGATCAGTTCCCACTGTCTCCCTTAACGTTAAAAGGAATTGAGGATGCTGGATTTAAGACAATGACTGTTGTTCAGGAGGCTACTCTTCCTCTCATT
           |||| |  |    |  | |     || | ||   |  |  | ||  || ||| | ||  |  | |   ||| | |  |  || | |  |||||||||| || |   || | |||||  |  | ||||||||| |  |||||||||||| | ||| |||||| ||||| |||||||||||||||||  | |||
acgtgactttgacatatacttgaatattattatccatggtttagtatgttatgttgctgttgtattatggatgtctgattttttag--atgtgatgcc-acagATTTGACCAATGTTCAATCTCTCCACTGTCATTAAAAGGAGTCAAGGATGCTGGATATGAGAAAATGACAGTTGTGCAGGAGGCTACTCTTCCAGTAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcttagtggtgtttgattcagatttctctttatggtaaaatggttcttacagATTTGATCAGTTCCCACTGTCTCCCTTAACGTTAAAAGGAATTGAGGATGCTGGATTTAAGACAATGACTGTTGTTCAGGAGGCTACTCTTCCTCTCATT
             gtttgat  putative branch site (score: 5)
                                              ttcttac  putative PPT
                                      taaaat  TA-rich tract