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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgacagtaattcaagcgctcgatcaaaagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG

Basic information

species Selaginella moellendorffii
transcript EFJ37607
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os03g55590.1 (Oryza sativa), 3'ss of exon 3
---------------------------gtgcgacagtaattcaagcgctcgatcaaaagttcttaaag---gtttcttcttcttgatc-cagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                              |  |  |||||          | |  || | || | |    |||  | |  | ||||  ||||||| ||||||||||||||| | ||| | |||||||| ||||| || || ||||| ||||| |||||||| ||||||
gtatattacatggtcgaccatcattttcaccttccataatttgcaaagatcaccggaaatcctcatatcttgttgttccaccatgattgcagTTGCTACTCCAAAGCAAATCAGGGAGGTGATGAAGGTTGATGGGCTCACCAACGACGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os07g02800.2 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------------------------------gtgcgac-agtaattcaa-gcgctcgatcaaaagttcttaaaggtttcttcttcttgatc---cagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                                                ||  |  |||||||    || |  | | |    ||| | ||    |    |  |||||    ||||||| ||||||||||||||| | ||||| |||||||| ||||| || ||||| || || || |||||||| || |||
gtacacttaattaattcattaattaattgccatttctagagctaagagcacctgcatctgcatgtggtgattaattactttggaattagtaattagttgctcatggtgattgattcctgaattgattgattgattgattgtgcagTTGCCACTCCAAAGCAAATCAGGGAGCTGATGAAGGTGGATGGACTGACAAATGACGAGGTCAAAAGCCATCTTCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os07g02800.3 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------------------------------gtgcgac-agtaattcaa-gcgctcgatcaaaagttcttaaaggtttcttcttcttgatc---cagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG-----------------------
                                                                                ||  |  |||||||    || |  | | |    ||| | ||    |    |  |||||    ||||||| ||||||||||||||| | ||||| |||||||| ||||| || ||||| || || || |||||||| || |||                       
gtacacttaattaattcattaattaattgccatttctagagctaagagcacctgcatctgcatgtggtgattaattactttggaattagtaattagttgctcatggtgattgattcctgaattgattgattgattgattgtgcagTTGCCACTCCAAAGCAAATCAGGGAGCTGATGAAGGTGGATGGACTGACAAATGACGAGGTCAAAAGCCATCTTCAGGTGAGGAAAATTCACCACTGTTT

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os12g39640.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------gtgcgac-agtaattcaagcgct-cgatcaaaagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                     ||  ||  | |  ||  |  | | || | |||  | ||||| | ||| || || ||||| ||| ||||||||| ||||| ||  | ||||| |||||||| ||||| || || || |||||||| ||||||||||| |||
atttgtggtcacattgttgattgctcctagtaaaattgtttgattaattttttgattggtgcgctgaaacttgcttaatgtttttttattgttgatgcagCTGCAACTCCCAAGCAGATTAGGGAGCTGATGAAGGTTGATGGCCTCACTAATGATGAAGTCAAAAGCCACCTGCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G124540_T01 (Zea mays), 3'ss of exon 3
------------------------------------gtgcgacagtaattcaagcgctcgatcaaaagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                    ||     | || ||     ||| ||  | | ||  | |    ||||  | | | | | ||||||| ||||| ||||| ||| | ||| | |||||||| || || ||||||||||||||||| |||||||| ||||||
gtacatatacacgacaccgcggatcgtctgtaagaagtttactactagtt-gcttgctagaggagatgtgttaacgaatttcaccgt-tggttgcagTTGCTACTCCGAAGCAGATCAGGGAGGTGATGAAGGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G173882_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------gtgcgacagta-attca-agcgctcgatcaaa--agttcttaaaggtttcttcttct-tgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                                                |||   | || || |  || | | ||   ||  ||||| |  | || |  |  |||    | ||||||| || |||||||| ||| | ||||| |||||||| || || || |||||||| ||||| ||||||||||| |||
gtgagccttgctcttcagatgcaaattatttcttgccggttttgggcggcctgcagcgtgttcttacctacttgcttgcctgccgtattagatacgtagagttggaattaacgagttcattcatgtctgattgtctgcactgcagTTGCCACCCCAAAGCAGATCAGGGAGCTGATGAAGGTGGACGGCCTCACAAACGACGAAGTGAAAAGCCACCTTCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
--------------------------------------------------------gtgcgacagtaattcaagcgctcgatcaa--aagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                                            |      | || |  ||  ||  ||  ||||  | |  ||| |||  |      | |||| || ||||| || || ||| | ||| | ||| | || || || ||||||||||||||||| |||||||| ||||||
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG

upper sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S83_100V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------gtgcgacagt--aattcaagcg-ctcgatcaaaagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                     |||     ||   |||| | |  | | |    || |||    |       | |  ||| | ||||||| || ||||||||||| || ||||| |||||||| || || ||||| ||||| ||||| || ||||| || |||
tttctctgtgtcggcattctccttgcattttgttctggtgtttatgttggattcgaacttcacaaattcaacttcactgacacgggctgtggttg-tgcagTTGCCACGCCAAAGCAAATACGCGAGCTGATGAAGGTCGACGGCCTTACCAACGACGAAGTGAAGAGCCATCTGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtaattcaagcgctcgatcaaaagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
                                            tcttgat  putative branch site (score: 4)
                                    tttcttcttcttgatc  CT-rich tract
                          ttcttaaa  TA-rich tract