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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT

Basic information

species Zea mays
transcript GRMZM2G700662_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G700662_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g49530.1 (Oryza sativa), 3'ss of exon 4
gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
   |||| || |||     |  |    | || | |     |||| ||  |||   |||    || | |||||   | || |||||   ||   | || |   | |     || ||||| ||| ||| |||| ||||| |||||||||||||||||| ||||||| ||||||||||| ||||||||||||||||||||||||||||||||||||||
--aatctcca-atgaa---aaaggacttgttctgg-----ccaa-agtcgaatatttactggatgttggaat---gtttctttcttaattgacttatatccgtgccttgcaatagGTCTATCGGTGAATGGAGATAGTCAAGGCTTAGAGCGACTCCTTGGAGCCCTTTCTGCACACATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT

upper sequence: GRMZM2G700662_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G32900.1 (Glycine max), 3'ss of exon 4
gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaac---taacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
                |         |  ||||  |    |||| |    | |   || || ||  |          || |||  |  | || |||| || |  |||     | |||||    ||  | |||||||||   |||||  | ||||| ||||  || || |||||||| |||||||||||||||||| |  ||||||||||  | || ||
----------------ccatattcaaactttttctgcttaccaaaacttaaggatata-atgatgaacattggaaaattattttcagat-atatgattttcacacaattattttacagGCTTGTCCATAGATGGTGATTTACAAGGAGTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCGATAGGAT

upper sequence: GRMZM2G700662_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G21560.1 (Glycine max), 3'ss of exon 4
gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
   | | ||| ||   || |     | |  |      | |  ||    |||| | | |   |||     |||| |  |    | ||  | |    |   |||||     | ||||||   ||  | |||||||||   |||||  | ||||| ||||  || || |||||||| |||||||||||||||||| |  |||||||||| || || ||
---accatcatatt--cgaactttttctgctcaccaaaatttaaggatagaatgatgaa--cattggaaaattattttcagatataattcac---acaattatt-----ttacagGTTTGTCGATTGATGGTGATTTACAAGGAGTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCAATAGGAT

upper sequence: GRMZM2G700662_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT5G65960.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatt--tgatgttta----ttcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
                                                              |  || |   || |            |  |  | | |     |  ||| | || | |   || | |  |   ||  | || ||| |   |||  ||| | | |    ||    ||   ||||  |||||| ||||| |||   |||||  | || || || ||||| |||||||| || |||||||||||||| |||||||||||||||||  | || ||
gtaagttctatctccttccttctgattatatattgactgcaatatgcccaatgtaatctggttactccttgtatagcttctactgaacttgtgaatgaaaagtgagtgaaaatggatgag--cagagaatacgcgtattcgtctctctagcattaatgaggctcacgggttggtccttgtagGTTTATCAGTCGATGGGGATTCTCAAGGGGTTGAACGTCTATTTGGTGCTCTTTCGGCTCATATGTGGCCTGGGATGATTCTGAAATCTGGTGATAGGAT

upper sequence: GRMZM2G700662_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0031g02260.t01 (Vitis vinifera), 3'ss of exon 4
gtgatcttcacatgggcggagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
                |      | | ||    |  |  |          |||  ||  ||  |       || | | |  | |  |  |||    ||  | ||||   | ||||||   |||||  ||||||||   |||||  | ||  || || | || || |||||||| |||||||||||||||||||  |||||||||||  | |  ||
------------ccttcaacactattctcccacaaagtttaggtcttggaaagagttccatttttcttcctttttcggtcatccatttatataaactggctgttca---tgacagGTTTGTCAGTTAATGGTGATTCACAAGGAGTTGATAGAATCCTGGGTGCACTTTCTGCTCATATGTGGCCTGGAATGACCCTGAAATCTGGTGATAAGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagGTCGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
                              atttgat  putative branch site (score: 5)
                            ttatttgatgtttatt  TA-rich tract