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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttctatattttgctccaatagtcacaatgacacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA

Basic information

species Selaginella moellendorffii
transcript EFJ30678
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 3'ss of exon 13
--------------------------------------gtacgttctatattttgctc--caatagtcacaa--tgacacgtg----catgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                                        |  ||    ||   | |   || |  ||||||  |   |  ||    |   |||  || |||||    |||   || ||||||||| |||| || |||||||| ||||| || || |||||||| |||||||| |||||||| |||||||||||
gtatatattagtaagagcaggaatttaattaaagaaaaaaaaatttggcatacagttgaacattgctcacaagcttttatttgataactcacagCTGAAGTTTTCTCCGATATCCAACCTTTGATTAGATCAGTTCTTGATGGATTCAATGTTTGCATTTTTGCATATGGACAAACTGGTTCAGGAAAAACATA

upper sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 3'ss of exon 13
--------------------------gtacgttctatattttgctccaatagtcacaatgacacgt------gcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                          |||    ||    | ||  | ||||    | |  ||   |         | |||  ||||||||   |||    || ||  |||||||||| || |||||||| ||||| || ||||||||||| ||||| || |||||||| |||||||| ||
gtatatttttttacaatggaaatctggtataagcttatctgtgtgcaaataaattctaatacttatctttcaatttacagCTGAGGTTTTCTCGGACATTCAACCGCTGATTCGATCAGTTCTTGATGGATTCAATGTTTGTATTTTTGCTTATGGTCAAACTGGTTCAGGAAAAACTTA

upper sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 10
--------------------------------------------gtacgttctata---ttttgctccaatagtcacaatga----cacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                                              || || | ||   || |  ||  ||| ||  | |       | |    | |||  |||||||||   ||    || ||  |||| ||||| || || ||||| |||||||| ||||||||||| ||||| |||||||||||||| ||||| ||
gtatgttgttttcttttaatttaaaagaaattgataatttaatatcacattttgtagtgttataatctgatattctgattattctctatgattttacagCTGAGGTTTTTTCTGACATACAACCACTGATCCGATCAGTTCTGGATGGATTCAACGTTTGTATTTTTGCATATGGCCAGACTGGTTCTGGCAAAACTTA

upper sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: AT1G63640.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------------gtacgttctatattttgctccaatagtcacaatgacacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                                         |   |  |||||  |  ||  ||  | |   ||  |  |  ||| ||| ||||||||  | ||| | |  || || ||||||||  | |||||||| |  || || ||||| ||||| ||||| |||||||||||||||||||| ||
gtttaaacctctttccctcttatgtattgttagcgttttcctctataatatatgatattcatatcctgaatctgttatct-tatgtagAGGAGGTTTTCTTAGATACTCGACCATTAATTCGATCCATTCTTGATGGCTATAATGTTTGTATATTTGCCTATGGTCAGACTGGTTCTGGAAAAACTTA

upper sequence: EFJ30678 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: Vv02s0025g03480.t01 (Vitis vinifera), 3'ss of exon 14
-----------------------------------------------------------------------------------------gtacgttctatattttgct-ccaatagtcacaatgacac-gtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                                                                                           |     | ||  || || ||  || |   |   |||  |||    |||| ||||| ||| | ||  | || || || |||||||| || |||||||| | ||| |||||||| ||||| ||||| || ||||| ||||||||||| ||
gttatcttcttataatattttatatttggccttgtttctttatttgtatatcctcagatttctattccacttagcatgcttttgttaggaaagaacttttaacttactacctttatttgtatatacattgtgttatcagAGGAGGTATTTTTAGACACTCAACCATTAATTCGATCTGTACTTGATGGATACAATGTCTGTATATTTGCCTATGGTCAAACTGGCTCTGGAAAAACCTA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|169097707|gb|FE499293.1|FE499293
EST:     TTATAAGATGTTTAATTTTAACAAGGTCTATGGCCCTCAAGCTCCACAAG                         ACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTT
genomic: TTATAAGATGTTTAATTTTAACAAGGTCTATGGCCCTCAAGCTCCACAAGgtacgttcta ... gtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTT
EST: gi|169078595|gb|FE487027.1|FE487027
EST:     TTATAAGATGTTTAATTTTAACAAGGTCTATGGCCCTCAAGCTCCACAAG                         ACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTT
genomic: TTATAAGATGTTTAATTTTAACAAGGTCTATGGCCCTCAAGCTCCACAAGgtacgttcta ... gtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacgttctatattttgctccaatagtcacaatgacacgtgcatgcagACGAGGTTTTTCTGGATGCGCAGCCTTTGATTCGATCGGTGCTTGATGGTTTCAACGTCTGTATTTTTGCGTATGGACAGACTGGTTCTGGAAAAACATA
                         ttctatatttt  TA-rich tract