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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaaagaagaaccctttctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

Basic information

species Selaginella moellendorffii
transcript EFJ34003
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 3
-----------------gtatgtgaaagaagaaccctttctttctgat-ctgaaagttctaaaactcttgtttt-----ccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                  | |  |     ||     | | ||  | |  |   |||||      ||  ||||||     |  | ||||| ||||||||||||||  ||||||||||    || || ||||| |||||||||||||||||||||||||| || ||||||||  |||| ||||||||||
gtttgtccatcaaaataattttaggctttagtgttatgttttagtaaaaccagaagttgatttcctactgttttaactactgtccagCCTCAAGATGCCTATGGTTTGGAGAAGCTTGCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 3
----------gtatgtgaaagaagaaccctttctttctgatctgaa-------agttctaaaactctt--gtttt-ccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
            |  |  ||  |    ||| | | |  ||  |  |       |  |||||| | | |  || || | || ||||| ||||||||||||||  ||||||||||    ||||| |||||||||||||||||||||||||||||||| |||||||||||  | || ||||||||||
gtgtgttcatcgaaatacaatgacgttcctgtttgttagacatatatacagtcaaatctaaatcccctcggtgttacgtttcagCCTCAAGATGCCTATGGCTTGGAGAAGCTTGCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G138907_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------gtatgtgaaagaagaaccctttctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                                |     ||  |   | |    |    |  ||    ||    ||||  ||  |   ||  |||| |||||||||||||| ||||| || ||    || || ||||||||||||||||| || ||||| ||||| ||||||||||||||||| ||||| ||||
gtttctaataaacttctgcatttctttacgctcgtgttagctgtcacctacttgagctgtgacttgcgatggcaaaatggtttttactgaactgatgcctaatttttagCCTCAAGATGCCTATGGCCTGGAAAAACTCGCGACTGAGGAGCTGTGCAAGCACTATACAAAGGATTTTGGCATCGAGTGCCGGATTGGTCGCTTTCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA19G43400.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtatgtgaaagaagaaccctttctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                          ||   | |    | ||  |||   ||   | | |  |  | |  ||   |||  ||  ||  |||| |||||||| |||||||||||||||||    || |||||| | |||||||| || | |||||| |||||||| ||||||||||||||| | ||||| |
gtttgttgctgattcttttaattagttgttcaacttattctggttattcacttgaaaatacttaggtt---agcagggatatatttaatatttgacttt-ttatagCCACAAGATGCATATGGGCTGGAGAAGCTTGCAACAGAAGAGTTATGCAAGCATTATAACAAGGATTTTGGAATTGAGTGCCGGATTGGGAGATTCCATA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA03G40720.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtatgtgaaagaagaaccctttctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                          ||   | |   || ||  |||    |   | | |  |  | |  || | |||  ||  ||  |||| |||||||| |||||||||||||||||    || |||||| | |||||||| || | |||||| |||||||| |||||||| |||||| | ||||| |
gtatgttgctgattctttgaattacttgttcaagttattctggttattcacttaaaaatacttaggct---agcagggatatatttaatttttgactt--ttatagCCACAAGATGCATATGGGCTGGAGAAGCTTGCAACAGAAGAGTTATGCAAGCATTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGATTCCATA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
------------------------------gtatgtgaaagaagaaccctttctttctgatc----tgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                               |||||         |   |  | ||  |||     | || ||  | ||  |  ||  |   ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | |||||| |||||||| |||||||| |||||| | |||||||
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttt-tagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
------------------------------gtatgtgaaagaagaaccctttctttctgatctgaa---agttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                               |||||         |   |  | ||  |||  | |   | || |  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | |||||| |||||||| |||||||| |||||| | |||||||
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: Vv05s0020g04510.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtatgtgaaagaagaaccctttct-ttctgatctgaaagtt----------ctaa--aactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                |||   ||| |  |   ||   | |  | || |||   ||          || |  | || ||   ||   |  |||| ||||||||||||||  | ||||||||    || || ||| | |||||||||||||| |||||||||||||| ||||| || ||||| || ||||| |
gtttttcctctaatcttataaaaaatatcagttctaaatatattcatttgaggattattggcataactgatgagctttttgcttttgtttagCCTCAAGATGCCTATGGCTTAGAGAAGCTCGCAACTGAGGAGTTATGCAAGCACTACACTAAGGACTTTGGAATTGAGTGTCGCATTGGACGGTTCCATA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 3'ss of exon 5
-------------------------------------gtatgtgaaagaagaaccctttc-tttctgat-ctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                        ||       |   | || ||  | ||||| || | |  ||  ||||   |   |  |  ||||||||||||||| || || ||||||||||||  |||||| ||||||||||||||||||| ||||||||| || || |||||||| || | |||||||||||
gtcctctcggccgtgtgtctgcgtgtcgccggctgcttgctgcaccgcgacgccgctgtcactgctgattcttacacctcccaaacgtct---tcgcccgcagCCCCAAGATGCGTACGGCCTGGAGAAGCTGGCCACCGAGGAGCTGTGCAAGCACTACAACAAGGACTTCGGCATTGAGTGCCGCATCGCGCGCTTCCACA

upper sequence: EFJ34003 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------gtatgtgaaagaagaacccttt-------ctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                ||  | |||     |   ||||        ||| ||   ||    ||   ||    ||  ||| || ||||||||||||||| || || || || ||| ||  |||||| ||| ||||||| || ||||| ||||||||||| || |||||||| ||||| ||||| ||||
cagtcgccacgcagttctctgtggtgaccagtgtccgcgaacatccattgctttacataatttttttggattgggcattgataag---ttacttttctggcagCCCCAAGATGCTTACGGTCTTGAAAAGTTGGCCACCGAGGAGTTGTGCAAACATTACACGAAGGACTTTGGCATGGAGTGCCGCATTGGTCGCTTTCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagaaccctttctttctgatctgaaagttctaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                             ttctaaa  putative branch site (score: 2)
                                     ctcttgttttccttgc  CT-rich tract
                             ttctaaaa  TA-rich tract