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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgggtgatttatggatctaacatttccttttggcctatcggttgcattaattccactgttccgacatgtttgttgttttggatatgtcaaacgatattcagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT

Basic information

species Arabidopsis thaliana
transcript AT5G63960.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 14
gtaagtgggtgatttatggatctaacatttccttttggcctatcggttgcattaattccactgttccgacatgtttgttgttttggatatgtcaaacgatattcagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT
 | | ||    |    |    ||    || |||||||| |  |    |     |  |    ||       |||  ||   ||||| |  |     || |  | ||||| || || |||||  | || || |||||||| |||||||| ||||| |||||||| ||  |||| || || ||||||||||| |||||| | || || |
-ttaatgttctacaccttttcctgtatttgccttttggacgtttcacttgtcaagctgtgttgccttttgatgcatgc-attttgaacttt----acaacttgcagGTATTGGAGGCAAGGGCTGGATTTTATGAAAAACCAATTGCTACTTTAGATTTTGCATCCTTGTATCCATCTATTATGATGGCCTATAATTTATGTTATT

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA04G38800.1 (Glycine max), 3'ss of exon 14
gtaagtgggtgatttatggatctaacatttccttttggcctatcggttgcattaattccactgttccgacatgtttgttgttttggatatgtcaaacgatattcagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT
     || |  |    |    |||   ||  |||||||  |    ||| || |  |    ||||  |    || |   || |||    |  | |  | |  | ||||| || || |||||  | || || |||||||| |||||||| ||||| |||||||| ||  |||| || || ||||||||||| |||||  | || || |
----atgtgctacaccttttcctatatttgtcttttggagttaatgtttcagttgtcgagctgtctccttttgatgcatgatttttgaacttta--caacttgcagGTATTGGAGGCAAGGGCTGGATTTTATGAAAAACCAATTGCTACTTTAGATTTTGCATCCTTGTATCCATCTATTATGATGGCCTATAACTTATGTTATT

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: PP1S54_271V6.1 (Physcomitrella patens), 3'ss of exon 14
---------------------gtaagtgggtgatttatggatctaacatttccttt---tggcctatcggttgcattaattccactgttccgacatgtttgttgttttg---------gatatgtcaaac------gatatt------cagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT
                      |||     |   |||| | | | ||||||| |||   ||    ||    |||| || ||      || | | ||| |   |  |||          | | | |||| |      | | |       ||||| ||||| || | | |||| | |||||| ||||||||||| |||||||||||||| ||| ||||||| || || |||||||| || ||||| || ||||
gtaagttttttaattttatttttaaaacaata--ttattgttgttacatttcttttgcatgagaaatgttgtgcactagttgttacattaccatatgctatctcctttccaagaacctggtttatcaagctcatcgggtctcgtttgacagGTATTAGATGCTAAAGCAGGGTACTATGACAAGCCAATTGCCACTTTGGATTTTGCATCATTGTACCCCTCCATCATGATGGCGTACAATCTTTGTTACT

upper sequence: AT5G63960.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: EFJ15982 (Selaginella moellendorffii), 3'ss of exon 13
gtaagtgggtgatttatggatctaacatttccttttggcctatcggttgcattaattccactgttccgacatgtttgttgttttggatatgtcaaacgatatt-cagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT
                                                        |     |||| | | | |   | | |||  |||       |    || |||||| ||||||||||  | || || || |||||||||||||| ||  | |||||||| ||||||||||| |||||||||||||| || ||||| ||||| |
-------------------------------------------------------gtaagtagttcgggcttttgaatcgatttttataaacgctgctgcgttacagGTTCTAGAAGCAAGGGCTGGATTTTACGAAAAGCCAATTGCCACGCTTGATTTTGCATCACTGTACCCATCAATTATGATGGCTTACAATCTTTGCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattccactgttccgacatgtttgttgttttggatatgtcaaacgatattcagGTTTTAGAAGCAAGAACAGGTTTCTATGAAAAGCCAATTGCAACTTTGGATTTTGCTTCACTGTACCCGTCAATTATGATGGCATATAATCTGTGCTACT
 cattaat  putative branch site (score: 3)
                          ttgtttt  TA-rich tract