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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatgtttgacctttcacccataaatttctttaagtcagcatgagatgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA

Basic information

species Physcomitrella patens
transcript PP1S44_339V6.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 3'ss of exon 6
gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatgtttgacctttcacccataaatttctttaagtcagcatgagatgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                                                                             |  |   |  | |||     | ||| | |   | |    ||  |   |   |    ||||| ||    |   |   |  ||||||||  ||  ||||||||||| || || | ||||||  | |||||||| ||||||||||| |||||||| ||||||||||| ||||| ||||| |||||| | || |  ||||
----------------------------------------------------------------------------------------gggcatctaatggaatactcttaagtcttttagcaagctctatcaagctatgtatggatgccatgatattttgatctaa-gattcatgaaatatttgatagGATGGTAACACCCTCTACAATGAGCTTGAAGTTGTAGAAGGCATGAAACTTGACAGAGGTTATATCTCTCCTTACTTCATTACCAACCAAAAGAACCAGA

upper sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 6
gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatgtttgacct--ttcacccataaatttctttaagtcagcatgagatgagaactcattaaaccatg-----aaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                                           ||| | |  |     |  |||| || | ||   || | | | | ||        || | ||| |  || |   | || |    ||  | || ||     ||     || ||||    |      |||   ||  ||||||||||| || |||| ||||||  | |||||||||||||||||||| |||||||| || || ||||| ||||| ||  | ||||||   || || ||||
----------------------------------------------------------gtaagttgatccaagtt--aaaactgaacttggcct-ctcttatctctatttggttggtagacttcctttagttaaaactgaacttgtgccaacactc--tggtttttcgttaatttgtttgcttaaacatttggtagGATGGTAACACCCTTTACAATGAGCTTGAAGTTGTGGAAGGCATGAAACTTGACAGAGGCTACATCTCTCCTTACTTTGTTACCAACCCAAAGACCCAGA

upper sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA10G33680.1 (Glycine max), 3'ss of exon 6
gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatg-tttgacctttcacccataaatttctttaagtcagcatgag-atgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                                                                        | |||  |   ||  ||||||     | |  |   ||| |   ||    | | || | |||  ||||  |||  |   | | |       ||| |||||  |||||||||| ||| | | |||||| || |||||||||||||| |||||||| |||||||| || || || || |||||||| || ||| | || |  ||||
----------------------------------------------------------------------------------------tcatcctcgt-tgcctcctccaaaggggtccgtggtttgaattatgccgtgcattta-tcaatatgaatatgctagggcctaacttttataaactgtttc-agGATGGTAAGACATTGTACAATGAGTTGGAAGTTGTGGAAGGAATGAAGCTCGACAGGGGATACATTTCTCCATATTTCATAACAAACCAGAAGAACCAGA

upper sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA20G19980.1 (Glycine max), 3'ss of exon 6
gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatgtttgacct---ttcacccataaatttctttaagtcagcatgagatgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                                                                                   | ||||  || ||||   | |       | |    ||| ||| |     |         ||   |         | |||   |    ||| ||||||| |||||| | |  ||||| || |||||||| ||||| |||||||| |||||||| || || || ||||||||||| || ||| | || |  ||||
--------------------------------------------------------------------------------------------tcatttctttttctgccattatccctaattccaacttagttttaattttttccccttgtattctgtatcttacagtgcctgatcattgtaaccatttcagGATGGCAAAACATTATATAATGAGTTGGAAGTTGTTGAAGGAATGAAGCTCGACAGGGGCTACATATCTCCTTATTTCATTACAAACGATAAGAACCAGA

upper sequence: PP1S44_339V6.1 (Physcomitrella patens), 3'ss of exon 5
lower sequence: GLYMA10G25630.1 (Glycine max), 3'ss of exon 6
gtaagtgggaaatacatttgaacatgttggtctgcgatgtcattgtggttcattgtcattaaatgggcctggtatcaaaaattggagttaatctgcacatgtttcctcccttatgtttgacctttcacccataaatttctttaagtcagcatgagatgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                                                          |||    ||    |     |   | || ||||  | |   ||||||  ||| ||||||    || | ||  | |          ||  || ||||     || || | |||  ||||||| |||||  | |  ||||| || |||||||| ||||| |||||||| |||||||| || || || ||||||||||| || ||  | || |  ||||
--------------------------------------------------------------------------tcatttcttctcctgccattatccctgattccaactta--gtttgaatttttacccattgtattttgtatttta--------caaggcctgattat----tggaactatttc-agGATGGCAAAACCTTATATAATGAGTTGGAAGTTGTTGAAGGAATGAAGCTCGACAGGGGCTACATATCTCCTTATTTCATTACAAATGATAAGAACCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctttaagtcagcatgagatgagaactcattaaaccatgaaattgtttttagGATGGTAAAACACTTTTCAATGAATTAGAAGTTGTGGAAGGCATGAAGCTTGACAGGGGTTATATCTCACCTTATTTCATCACCAACAACAAAACTCAGA
                                             ttgttttt  CT-rich tract
                                       atgaaattgttttta  TA-rich tract