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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacactttagccaactacagttacttttatatatatatatatatatatatatatatatatatatatatatatacatagatatagatatatgtatttgtgtgtgaatggttgtggatttgtaagtcataaacctaaaatatgggtttgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG

Basic information

species Physcomitrella patens
transcript PP1S99_12V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S99_12V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os04g56530.1 (Oryza sativa), 3'ss of exon 6
gtacactttagccaactacagttacttttatatatatatatatatatatatatatatatatatatatatatatacatagatatagatatatgtatttgtgtgtgaatggttgtggatttgtaagtcataaacctaaaatatgggtttgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG
                                                 |  |||  | | | | |  |      ||  |||     ||| | | || |||   ||   ||||  |  |||   |||| ||  || ||| |    |||||     ||||  | || || |||||||||||||||||||| || ||  | ||||||||||||||||| |||||||| || || ||||| || || |||||||| || |
-----------------------------------------------gaaattatggaaacagagaactgctggaatgaatacct-cataggcagttatgtaccaa-atttgtctacatgttc-tcattaatgtacaatct---cttgtt----tagGGCCTTGTCAAACTTGCTGATTTTGGAGTTGCTACTAAATTAACTGAAGCTGATATCAACACACATTCAGTGGTTGGAACTCCATACTGGATGGCCCCTG

upper sequence: PP1S99_12V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G305321_T01 (Zea mays), 3'ss of exon 3
gtacactttagccaactacagttacttttatatatatatatatatatatatatatatatatatatatatatatacatagatatagatatatgtatttgtgtgtgaatggttgtggatttgtaagtcataaacctaaaatatgggtt-tgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG
                                                        | |  |  | | |||   | |  ||    | |  || | | |      |   ||  |   |||      ||||  | | |  ||||     || |   | ||||  | || || |||||||||||||||||||| || ||  ||||||||||||| ||||| || |||||||| ||||| || || || |||||||| || |
-------------------------------------------------------ttgtgaa-gtgtgtatcccccttaattctaa-acttgcaatagaaacatagcagtaatatgttttctctacatat-cttcatttatgaaccctgcttgtttagGGTCTTGTCAAACTTGCTGATTTTGGAGTTGCCACTAAATTGACTGAAGCTGACATCAACACTCATTCTGTGGTCGGCACTCCATACTGGATGGCGCCTG

upper sequence: PP1S99_12V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GRMZM2G017654_T02 (Zea mays), 3'ss of exon 6
gtacactttagccaactacagttacttttatatatatatatatatatatatatatatatatatatatatatatacatagatatagatatatgtatttgtgtgtgaatggttgtggatttgtaagtcataaacctaaaatatgggtttgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG
                                 ||||  | |||| |||     | ||| | || |  |  | | | | | |||   |||    ||| | | |  ||   |    ||||||    | |               | |||||     ||||  | || || |||||||| ||||||||||| || ||  ||||||||||||| ||||| || |||||||| ||||| || || || |||||||| || |
---------------------------------atatgaa-atatgtatccccctttat-tctaaacttcca-atagaaacataacaataacactttttctctacatatcttc--atttgtgtaccct---------------gcttgtt----tagGGCCTTGTCAAACTTGCTGACTTTGGAGTTGCCACTAAATTGACTGAAGCTGACATCAACACTCATTCTGTGGTCGGCACTCCATACTGGATGGCGCCTG

upper sequence: PP1S99_12V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 6
gtacactttagccaactacagttacttttatatatatatatatatatatatatatatatatatatatatatatacatagatatagatatatgtatttgtgtgtgaatggttgtggatttgtaagtcataaacctaaaatatgggtttgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG
                                               || | |||||  | |  ||     | | ||   | | ||    | ||   |  | || |||| | |    |  ||||| ||   | | || |   | ||| |  | ||||||  | ||||| |||||||| ||||| |||||||||||  | ||||| || ||| | ||||| ||||| ||||| || || || ||||||||||| || |
----------------------------------------------cattt-tatatgaa-acttaagctcaca-atttgtttggaatggtataggagcttctggatggattt----tcttaagtaattg-cttgaact---gatttatattttcagGGTCTTGTGAAACTTGCTGACTTTGGTGTTGCAACAAAATTAACTGAGGCAGATGTTAATACGCATTCCGTTGTTGGGACACCATATTGGATGGCCCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatggttgtggatttgtaagtcataaacctaaaatatgggtttgttgtatcagGGATTGGTGAAGCTTGCTGATTTTGGAGTTGCAACAAAGCTGACTGAAGCTGATATCAATACACATTCTGTTGTCGGAACGCCCTATTGGATGGCTCCAG
                            acctaaa  putative branch site (score: 3)
                        ataaacctaaaatat  TA-rich tract