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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACTTGGACTGGTTTTATTTTTGCAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA

Basic information

species Selaginella moellendorffii
transcript EFJ35306
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ35306 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os04g51150.1 (Oryza sativa), 3'ss of exon 2
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACT-TGGACTGGTTTTATTTTTGCAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA---------------------------------
                                                                       | |||| |   ||| | || || | ||             || |          | |  |     ||  | |  |  | |||    | ||| ||   |   |||| |  | || |||||||| ||||||||||| ||||| || || ||||| ||||||||||| || || |                                 
-----------------------------------------------------------------------acatga-tatccatttcta-gtagtatgtggaaatgatctctagtcggtcgctaattgctgtaactgtcaatggttaacactgcaaattgggttgggt---gcagAGGAGGTATGGCTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCGGGGATGGTGGGCGGCATGCTGCTCCACCTCCGGTCCCTCCGGCGCTTCG

upper sequence: EFJ35306 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os02g47200.1 (Oryza sativa), 3'ss of exon 2
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcc---tggggatcaaacgagtttttagtttgctagTCTTA-TAAACTTGGACTGGTTTTAT--TTTTGCAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA---------------------------------
                                                                                          |    || |    | ||  | |       |||||  | | | | |  ||||||  ||  | |  |   | |    |   |   |||||||| |  | ||||| ||||| ||||||||||| ||||| || || ||||| ||||||||||| || || |                                 
-----------------------------------------------------------------------------------------gtaaccaaccacaactaattttccatcaaagatcatgccaatctat--tttgctgatcgaaatggatgggaatcaatggaacgattttgcagAGGAGGTACGGGTGCCGCGCGATGATGCTGGAGACGGTGGCGGCGGTGCCGGGGATGGTGGGCGGCATGCTGCTGCACCTCCGGTCGCTCCGCCGCTTCG

upper sequence: EFJ35306 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os02g21300.1 (Oryza sativa), 3'ss of exon 2
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACTTGGACTGGTTTTATTTTTGCAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA
        || ||| ||          |||    || ||    ||||  |       || |||  |    | ||  |   |  |||       ||||| ||   |       |||   ||| | ||| |    ||  ||  | |    |  || |    |||         || |||  |    || ||  |  ||  |     ||   |||   ||||| || | | |  |||  |     
--------gaagcgatta---------attcgtatcgagagttgataattgatcagattgctaatcaactagtagcagcaatgatg-----aatgaattctgatggtcaatttggttgtcagAGGAGGTACGGGT--GCCGGGCGATGATGCTGGAGACGGTG--------GCGGCGGTGCCGGGGATGGTGGCCGGCG-----CGGTGCTGCATCTGCGTTCGCTGCGGCGGTTCG-----

upper sequence: EFJ35306 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: AT1G32350.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgaaagcgatgcgtttgcccacagacattttcttccaggcaagatatctttctctctttctatcctttgaatatgaatgagcatgtttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACTTGGACTGGTTTTATTTTTG----CAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA---------------------------------
                                                                     | |  | ||| || |  ||||  |    | |||     | || |     |  |||  | ||||  |||       | | ||| |  || |  ||| |||||||     || |     ||   ||||  |||||| |||| ||||| || |||||||| ||||| |||||||||||||                                 
---------------------------------------------------------------------gtaatttaatcagaaattttaaatc---ttcttcatttgttcttttatttttaacatgattttgtttt------ttcaaaaatt--gaataatttgatttttgagtatagAGGAAGCACATGTGCCATGCGATGTTGCTAGAGACGGTGGCTGCGGTGCCGGGAATGGTCGGGGGGATGCTTTTGCACTTGAAATCTCTCCGGAGGTTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgttgaatccttgcgaagctcctggggatcaaacgagtttttagtttgctagTCTTATAAACTTGGACTGGTTTTATTTTTGCAGCGACGATACGGCTGCCGAGCGATGATGCTCGAGACTGTCGCTGCGGTCCCGGGGATGGTCGGGGGGA
                                        tttttagttt  TA-rich tract