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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCGACCCCGCAGCCCTTGCTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacctaattctatcggtagaagggcgatttacgcatgttcctgaataaatgtgagtggtcttttcattttgacacgtagtacagatacgcagttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag

Basic information

species Physcomitrella patens
transcript PP1S5_239V6.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 5'ss of exon 9
TGCGACCCCGCAGCCCTTGCTT-CATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacctaattctatcggtagaagggcgatttacgca-tgttcctgaataaatgtgagtggtcttttcattttgacacgtagtacagatacgcagttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag
    |||      |||| | || ||||| ||||||||  |||| ||||||||||| || || ||||| || || ||| | |||||||||| ||||||||| |||||||  |   | || ||  | ||||   |           ||||  | |||||    ||| ||||   |  |  |||  ||||  ||  |   | | || |||| | |  | |                                                                                 
-TAAACCTGATCTCCCTCGATTGCATGAGTGGCATTTCCGATCTGGACTGGATCGCTACATATGGATTGTGGGGATGATTTATGCTTATTACCATCCAACTgtatgtt--tcctgccaactg-tgctatactt-----------ttacatagtgttcagttatagatgttc-tatttctttagttttatcaaatttcataaat-cgca-taaaagttg--------------------------------------------------------------------------------

upper sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G020721_T01 (Zea mays), 5'ss of exon 9
TGCGACCCCGCAGCCCTTGCTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacctaattctatcggtagaagggcgatttacgcatgttcctgaataaat-gtgagtggtcttttcattttgacacgtagtacagatacgcag--ttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag
|    |    |  |||  | | ||||||||||| ||| |||| ||||||||||| || ||||||||||| || ||| | ||||| |||| ||||||||| |||||||  ||||  ||  || || |    ||||  |  |  |||    |  ||| |  |    | |   |    |   | ||| |  ||   ||   |   | |  |  || ||||   |  |   ||   | ||  |                                                            
TAAACCAGATCTTCCCCGGTTGCATGAATGGCAATTTCGATCTGGACTGGATCGCTACATTTGGATCGTGGGGATGATATATGCATATTACCATCCAACTgtatgtt--tttgaccatatattttttattgtagttgttctgtttctttagattcatagaccccttggaggcaaccacatgattgtttcaaagagcgtaaggaagttgtattttggcattgatgaaatatcctgtctcag-----------------------------------------------------------

upper sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT1G29890.2 (Arabidopsis thaliana), 5'ss of exon 8
TGCGACCCCGCAGCCCTTG-CTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcacc-taattctatcggtagaagggcgatttacgcatgttcctgaataaatgtgagtggtcttttcattttgacacgtagtacagatacgcagttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag
    |||   |   ||  | || || ||||||||||| ||||| ||||| ||||| || || |||||| |||||||| | ||||| ||||| ||||| || |||  |  |      ||   |  ||  ||   |   |   |   |  || | |   |  | ||||| | | |||   |||||                                                                                                                   
-TAAACCAGACCTTCCACGTCTACACGAATGGCATTTCAGATCTGGACTTGATCGCTACATATGGATCATCGGCATGATATATGCATATTTTCATCCCACTgtaattccag--aaccatggtgctttcattttttccatatctcctctcgaaagacgc-aactaaatat-attggggatttcag------------------------------------------------------------------------------------------------------------------

upper sequence: PP1S5_239V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv10s0003g02830.t01 (Vitis vinifera), 5'ss of exon 4
TGCGACCCCGCAGCCCTTG-CTTCATGAATGGCATTTTAGATCAGGACTGGATCGATATATTTGGATCGTCGGCATGCTCTATGCTTATTTCCATCCAACGgtatgttgatttggtcaccta-attctatcggtagaagggcgatttacgcatgttcctgaataaatg-tgagtggtcttttcattttgacacgtagtacagatacgcagttatggctacggcgcgttaatttttcgaaattacagagggctcacttccacatatttgacaatgcttttcatgaacttcatgttggcag
    ||   |   |||| | || |||||||||||||||||||| || || ||||| |||||||||||| |||| ||| | ||||| ||||  || || |  |||  ||  ||     |     |   |   | |   |  ||  ||    |    |||  | ||| || | | |    ||||  || | |                                                                                                             
-TAAACAAGGTCTCCCTCGACTGCATGAATGGCATTTTAGATCTGGGCTTGATCGCTATATTTGGATCATCGGAATGATATATGCCTATTATCACCCTAATgtaatttttttcaagtattggtacaatgatgattttatagctcttctttctccgtcc--actaactggtaaatatattttttgttcttag------------------------------------------------------------------------------------------------------------