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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgccatttatcggagtgtagctgttaatctttgtggctttgataaagcaggcataattctgaaatggttgagatgtaagggacagttgactttatggttgtaccaacagtttctgtggtaattgtggcgaatgcagTGGCAATGCCCGATTTGTCTGAAGAACTATTCAATAGAGAATCTGATCATCGACCCTTTTTTTAATCAGATTACAAATGCG

Basic information

species Physcomitrella patens
transcript PP1S94_39V6.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S94_39V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: AT5G60410.4 (Arabidopsis thaliana), 3'ss of exon 14
gtatttgccatttatcggagtgtagctgttaatctttgtggctttgataaagcaggcataattctgaaatggttgagatgtaagggacagttgactttatggttgtaccaacagtttctgtggtaattgtggcgaatgcagTGGCAATGCCCGATTTGTCTGAAGAACTATTCAATAGAGAATCTGATCATCGACCCTTTTTTTAATCAGATTACAAATGCG
                                                   | |||  ||   ||    | ||  |||| |  |||  |  || || |    || |  |   ||||  | |||   ||||     ||||||||||| ||||| ||||||||||||||||| ||| | ||| || | ||| |||| |||| |||||| |  || ||   |  |
---------------------------------------------------gtaggtcta---ctatccttgtctagatatt-gggtta--tgtctcttgttttctgactttagttgttctggggtttgtta-acatgcagTGGCAGTGCCCTATTTGTCTGAAGAACTACTCAGTGGAGCATGTAATCGTCGATCCTTATTTTAACCGTATCACGTCTAAG

upper sequence: PP1S94_39V6.1 (Physcomitrella patens), 3'ss of exon 13
lower sequence: Vv06s0004g03180.t01 (Vitis vinifera), 3'ss of exon 13
gtatttgccatttatcggagtgtagctgttaatctttgtggctttgataaagcaggcataattctgaaatggttgagat-gtaagggacagttgactttatggttgtaccaacagtttctgtggtaattgtggcgaatgcagTGGCAATGCCCGATTTGTCTGAAGAACTATTCAATAGAGAATCTGATCATCGACCCTTTTTTTAATCAGATTACAAATGCG
                                                  |   | || | | |   | | |||    |  |      |     | ||| || || |   | ||     |||  |  ||||      | ||||||||||| || |||||||| |||||||||||  |||||||| | ||||| || || | ||| ||||  || |||    ||
------------------------------------------------gcaagtgacagattgccagatttgtttcttttattttcttctagcaattttgtgtttctg--agcaagcattgtact--ttgtt-----tacagTGGCAATGTCCCATTTGTCTCAAGAACTATTCTCTAGAGAATGTTATCATTGATCCATATTTCAATCGCATCACATCCTCG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagttgactttatggttgtaccaacagtttctgtggtaattgtggcgaatgcagTGGCAATGCCCGATTTGTCTGAAGAACTATTCAATAGAGAATCTGATCATCGACCCTTTTTTTAATCAGATTACAAATGCG
  agttgac  putative branch site (score: 4)
       actttat  TA-rich tract