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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgaacgaagaaccctttctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA

Basic information

species Selaginella moellendorffii
transcript EFJ37510
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 3'ss of exon 3
-----------------gtatgtgaacgaagaaccctttctttctgat-ctggaagttgtaaaactcttgtttt-----ccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                  | |  |     ||     | | ||  | |  |  |||||||     ||  ||||||     |  | ||||| ||||||||||||||  ||||||||||    || || ||||| |||||||||||||||||||| ||||| || ||||||||  |||| ||||||||||
gtttgtccatcaaaataattttaggctttagtgttatgttttagtaaaaccagaagttgatttcctactgttttaactactgtccagCCTCAAGATGCCTATGGTTTGGAGAAGCTTGCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G124434_T01 (Zea mays), 3'ss of exon 3
-----------gtatgtgaacgaagaaccctttcttt---ctgatctgga---agttgtaaaactctt--gtttt-ccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
           | |    || || |  ||  ||  ||   |  || |  |   |  | |||| | | |  || || | || ||||| ||||||||||||||  ||||||||||    ||||| |||||||||||||||||||||||||| ||||| |||||||||||  | || ||||||||||
gtgtgttcatcgaaatacaatgacgttcctgtttgttagacatatatacagtcaaatctaaatcccctcggtgttacgtttcagCCTCAAGATGCCTATGGCTTGGAGAAGCTTGCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G138907_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------------gtatgtgaacgaagaaccctttctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                                ||  ||| |   ||  | |    |    |  |||   ||    ||||  ||  |   ||  |||| |||||||||||||| ||||| || ||    || || ||||||||||||||||| || ||||||||||| ||||||||||||||||| ||||| ||||
gtttctaataaacttctgcatttctttacgctcgtgttagctgtcacctacttgagctgtga--cttgcgatggcaaaatggtttttactgaactgatgcctaatttttagCCTCAAGATGCCTATGGCCTGGAAAAACTCGCGACTGAGGAGCTGTGCAAGCACTATACAAAGGATTTTGGCATCGAGTGCCGGATTGGTCGCTTTCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA19G43400.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtatgtgaacgaagaaccctttctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                          ||   | |    | ||  |||   ||   | | || |  | |  ||   |||  ||  ||  |||| |||||||| |||||||||||||||||    || |||||| | |||||||| || | ||||||||||||||| ||||||||||||||| | ||||| |
gtttgttgctgattcttttaattagttgttcaacttattctggttattcacttgaaaatacttaggtt---agcagggatatatttaatatttgacttt-ttatagCCACAAGATGCATATGGGCTGGAGAAGCTTGCAACAGAAGAGTTATGCAAGCATTATAACAAGGATTTTGGAATTGAGTGCCGGATTGGGAGATTCCATA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA03G40720.1 (Glycine max), 3'ss of exon 3
------------------------------------------gtatgtgaacgaagaaccctttctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                          ||   | |   || ||  |||    |   | | || |  | |  || | |||  ||  ||  |||| |||||||| |||||||||||||||||    || |||||| | |||||||| || | ||||||||||||||| |||||||| |||||| | ||||| |
gtatgttgctgattctttgaattacttgttcaagttattctggttattcacttaaaaatacttaggct---agcagggatatatttaatttttgactt--ttatagCCACAAGATGCATATGGGCTGGAGAAGCTTGCAACAGAAGAGTTATGCAAGCATTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGATTCCATA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA20G36740.2 (Glycine max), 3'ss of exon 3
------------------------------gtatgtgaacgaagaaccctttctttctgatctgga---agttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                               |||||         |   |  | ||  |||  |||   |  |||  || | |     |  ||  |||| |||||||| |||||||| ||||||||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
gtttgttggtgatcttttcaattgttcaatttatgttggttcttgattttcacattgggattgggattaatgtgtttaattttgtgactgtttttagCCACAAGATGCATATGGGCTAGAGAAGCTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA10G30400.1 (Glycine max), 3'ss of exon 2
------------------------------gtatgtgaacgaagaaccctttctttctgatctgga---agttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                               |||||         |   |  | ||  |||  |||   | ||||  || | |     |  ||  |||| |||||||| |||||||| ||||| ||    || || ||  | ||||||||||| | ||||||||||||||| |||||||| |||||| | |||||||
gttagttggtgatcttttgaattgttcaatttatgttggttcttgattttcacattgggattgggattaatttgtttaattttgtgactttttttagCCTCAAGATGCATATGGGCTAGAGAAACTTGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: Vv05s0020g04510.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtatgtgaacgaagaaccctttctttctgat--ctgg---aagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                         |||  |  | ||  |   |   ||   |||   |||   || |  | |   | ||| |||  ||  |||| ||||||||||||||  | ||||||||    || || ||| | |||||||||||||| ||||| |||||||| ||||| || ||||| || ||||| |
gtttttcctctaatcttataaaaaatatcagttctaaatatattcatttgaggattattggcataactgatgagctttttgcttttgtt-tagCCTCAAGATGCCTATGGCTTAGAGAAGCTCGCAACTGAGGAGTTATGCAAGCACTACACTAAGGACTTTGGAATTGAGTGTCGCATTGGACGGTTCCATA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: EDP09235 (Chlamydomonas reinhardtii), 3'ss of exon 5
----------------------------------gtatg-tgaacgaagaaccctttctttctgatctggaagttgtaaaactc--ttgttttc-cttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                  |  || || ||   ||  ||  | |  |||  |||    ||  |   | |    || ||| |  ||||||||||||||| || || ||||||||||||  |||||| ||||||||||||||||||| |||||| || || || |||||||| || | |||||||||||
gtcctctcggccgtgtgtctgcgtgtcgccggctgcttgctgcaccgcgacgccgctgtcactg--ctgattcttacacctcccaaacgtcttcgcccgcagCCCCAAGATGCGTACGGCCTGGAGAAGCTGGCCACCGAGGAGCTGTGCAAGCACTACAACAAGGACTTCGGCATTGAGTGCCGCATCGCGCGCTTCCACA

upper sequence: EFJ37510 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------gtatgtgaacgaagaacccttt-------ctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
                                ||  | ||||    |   ||||        ||| ||   |||   |||  ||    ||  ||| || ||||||||||||||| || || || || ||| ||  |||||| ||| ||||||| || ||||| ||||| ||||| || |||||||| ||||| ||||| ||||
cagtcgccacgcagttctctgtggtgaccagtgtccgcgaacatccattgctttacataatttttttggattgggcattgataag---ttacttttctggcagCCCCAAGATGCTTACGGTCTTGAAAAGTTGGCCACCGAGGAGTTGTGCAAACATTACACGAAGGACTTTGGCATGGAGTGCCGCATTGGTCGCTTTCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgaagaaccctttctttctgatctggaagttgtaaaactcttgttttccttgcagCCCCAAGATGCCTATGGGCTGGAGAAGCTGTGCACCGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACA
               ttctgat  putative branch site (score: 3)
                                     ctcttgttttccttgc  putative PPT
                             ttgtaaaa  TA-rich tract