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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcacgcattctcagcattgctggatcatcgatctcactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC

Basic information

species Selaginella moellendorffii
transcript EFJ05363
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: LOC_Os08g19650.1 (Oryza sativa), 3'ss of exon 4
-----------------------------------------gtgagttca-cgcattctcagcattgctggatcatcgatctcactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                                         | | ||||| | ||   |   |||  ||| ||       |    |   | |  |||| | |||| |||   ||||| ||||| |||||||| || |||||  |||| ||||| |||||||||||||||||||||||  | ||  | |||||||||    |||
atgccgtttggccacttgtgccctctcttttcatccattttgggtgttcatcacaggatgtacataactgaattcctctcccttttttttcgtcatgtagGAGGAAGAC---AAGGCACGGCTAGTCCAAGAAACAGGGCTACAGCTAAAGCAGATCAACAACTGGTTCATCAACCAAAGGAAAAGAAACTGGCACAGTAACC

upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: LOC_Os02g08544.2 (Oryza sativa), 3'ss of exon 4
--------------------------gtgagttcacgcattct--cagcattgctggatcat--cgatct-cactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                          || | || |   ||| |   | || |  ||| ||||  ||| |    ||   || | || |  ||||| ||||| ||||| || ||||| || || || ||| |  | || |||||||||||||| |||||||| ||||| ||||| || ||||||||   | |||
gtacgtggcaccaacattccatttccgtaactttat-tattatggtatcaattgtgggtcatgacgagcaattctttctacacatatt-cagGAAGACGACAAGGCCCGCCTGGTGCAGGAAACGGGGTTACAACTGAAGCAAATCAACAATTGGTTCATTAACCAACGCAAACGAAACTGGCATAGCAACC

upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: GRMZM2G433591_T02 (Zea mays), 3'ss of exon 5
-------------------------------gtgagttcacgcattctcagcattgctggatcatcgatctcactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                               || || |   ||  ||   |    |||   | ||      | ||  |   |   ||  ||||| ||||| |||||  | ||||| || || || ||| || |||| ||||||||||||||||||||||| ||||| |||||||| |||||||||  | |||
gtacgtgacaccgcgtcaacttaattccctcgttagcttctgctatca-ggttcggctcattgatgagcaactctttgcttactcgtc-cagGAAGACGACAAGGCCAGACTGGTGCAGGAAACGGGGTTGCAGCTAAAGCAAATCAACAACTGGTTCATTAACCAACGCAAGCGGAACTGGCACAGCAACC

upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: GRMZM2G370332_T01 (Zea mays), 3'ss of exon 4
---------------------------------gtgagttcacgcattctcagcattgctggatcatcgatctcactaggtagagatgtggc-agGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                                 || |  |   ||  | ||||| | | |  ||    |||| ||||   |    ||    | |||| ||||| ||||| || ||||| || || || ||  || |||| ||||| || |||||||||||||||||||| ||||| || |||||||||  | |||
gtatgtgacactacggcgacatataattccctcgtcaacttttgc--tatcagcttgggttcattgctgatc-cactctttgcttattcatccagGAAGACGACAAGGCACGACTGGTGCAGGAAACGGGATTGCAGCTAAAGCAGATTAACAACTGGTTCATCAACCAACGCAAACGGAACTGGCACAGCAACC

upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: GRMZM2G055243_T01 (Zea mays), 3'ss of exon 4
---------------------------------------------------------------------------gtgagttcacgcattctcagcat------tgctggatcatcg--atctcactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                                                                            ||  | |   || || |||||       |  |   ||||    || | |    | |    |     ||||||| || ||||| || ||||| || || || |||||  | || ||||| ||||| |||||||| ||||||||||| ||||| ||||||||| || |  
gtaagtgaacacattgatcctatcactcccagcaccattcctagttactcatgagcatattattacgttgaacacatggatcctatcactcccagcaccattcctatttactcatgagtatattatcgtggaccacttgtttagGAGGAAGACAAGGCTCGACTGGTGCAGGAAACAGGGCTACAACTGAAGCAGATCAATAACTGGTTTATCAACCAGCGTAAGCGGAACTGGCACAACAATT

upper sequence: EFJ05363 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: PP1S77_59V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------------gtgagttcacgcattctcagcat----------tgctggatcatcgatctcactaggtagagatgtgg-cagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                            |||  ||    | ||   |||||           ||    | |    |    |  ||     |||    |||||||| ||||| |  |   |  | || ||||| ||  |||||||||||||| ||||||||||||| || |||||||| ||||| ||||||||   | |||
tgcataaccggtagactcttctgaatgcgtggcttatgacgtttctagcatatcatcaaaacgcccagtaacattttgttccgggacacaatgcaatcagGAGGATGAGAAAGAACAATTAATACAGGAGACAGGATTGGAGCTCAAGCAAGTCAACAACTGGTTTATAAACCAGCGAAAGCGAAACTGGCATAGCAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacgcattctcagcattgctggatcatcgatctcactaggtagagatgtggcagGAGGACGAGAAGGCGCGGCTGGTCCAAGAGACCGGGCTGGAGCTCAAGCAAATCAACAACTGGTTCATCAACCAGCGCAAGCGCAACTGGCACCACCACC
                              atctcac  putative branch site (score: 3)