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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtgcagtgagttttaaaagtactagtatttctgatgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttgcagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA

Basic information

species Zea mays
transcript GRMZM2G388892_T02
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 23
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 3'ss of exon 22
-cgtgcagtgagttttaaaagtactagtatttctgatgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttg-cagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
 | |    ||| | |||  || | || | ||| |||        ||| | | ||  || |||| |||| | ||||  ||||||||||  || |||||| ||||| || |||||||||||||| || ||||| |||||||| |||||||||||||||||  ||||||| || ||||| ||||| || |||||||||||||| |
gcatttcttgaatgttagtaggattattgtttgtgaaagtgt--gttctaatttgttttttgtcatcttggcatgcttttcactactgcatgtttttgtcagGCTAATATTCGTCTGCGTCGCGTGAGAAATCCTATAATTGGTGACAAGTTCAGCAGCAGACATGGTCAAAAGGGAGTTTGTTCGCAGTTGTGGCCTGATA

upper sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 23
lower sequence: GLYMA13G26190.1 (Glycine max), 3'ss of exon 27
cgtgcagtgagttttaaaagtactagtatttctg-atgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttg---cagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
     | |  |||    |  |  || | |||  |   ||    |||| |  ||||| |       | |  ||   |  ||     |||   ||  |||   ||||  ||||| ||| | || | |    | |||||| | || ||||| || || |||||  ||||||||||||| ||||||||||||||| ||||||| ||  
----gatttggttagtcagttgatatttttttagtgggcttctagttctttatttgattactcactttgatctgctaatttttagcttatgctcattggagcagGTTAACATACGTTTTCGACATCCCCGGAACCCTGTTATTGGTGATAAATTTAGCAGCAGACATGGGCAGAAAGGTGTTTGCTCTCAGCTGTGGCCAGATG

upper sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 23
lower sequence: GLYMA17G23500.2 (Glycine max), 3'ss of exon 1
cgtgcagtgagttttaaaagtactagtatttctgatgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttg---cagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
  |   || |||   |   |   |  | || |||  ||  | |||| |   |||| |  |    | |  ||   |  ||     |||   ||| |||   ||||  ||||| ||  | || | |    | |||||| | || ||||| || || |||||| ||||||||||||| || |||||||||||||||||||| ||| 
gatttggttagtc--agttgatatctttttactgg-gcttatagttctttttttgattattcactttgatctgctaatttttggcttatgcttattggagcagGTTAACATACGCTTTCGACATCCTCGGAACCCTGTTATTGGTGATAAATTTAGCAGTAGACATGGGCAGAAAGGCGTTTGCTCTCAGTTGTGGCCAGACG

upper sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 23
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 3'ss of exon 24
cgtgcagtgagttttaaaagtactagtatttctgatgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttgcagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
                           |  | | |  |||||  |     |      |||   || | |       | | | |      | | || ||||||||| |||||| | || | ||  |||||||| |||||||||||||||||||||||| |||||||||| ||||||||||| ||||| ||||||||||| |
------------------------gtgaggtttaactccaactatcgcatagacag-attccaat-tggcttaaaatctaattttcgagtttcttggcagGCGAATATTCGTTTCCGGCATGCCAGAAACCCCATAATCGGTGACAAGTTCAGCAGTAGACATGGGCAAAAGGGTGTTTGTTCTCAATTGTGGCCTGATA

upper sequence: GRMZM2G388892_T02 (Zea mays), 3'ss of exon 23
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 3'ss of exon 23
cgtgcagtgagttttaaaagtactagtatttctgatgccaacagttatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttgcagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
| |      |  || |  ||  |    |||| |  | |    | ||       | |  || | |  |   |||    |  | |       |||   ||||| ||| |||||| | || |||   ||||| ||||| || ||||| || || || ||  |||||||||| || ||||||||||| ||||||||||| || |
cctatgaaaatattcagcagggcacaaatttgtattacatgtattttgtttcatatgctttttacataaacatcccctatattttccttacttcgggcagGTGAATATTCGTTTTCGGCGTCCTAGAAATCCTATTATTGGTGATAAATTTAGTAGCAGACATGGGCAAAAAGGTGTTTGCTCGCAGTTGTGGCCAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaatttgttattgtgatctcgtcatgtgtttcactacttgatctttttgcagGCGAACATTCGTCTGCGTCGTGTAAGAAACCCTATAATCGGTGACAAGTTCAGCAGTCGACATGGGCAGAAGGGTGTTTGCTCTCAGTTGTGGCCTGACA
                                      acttgat  putative branch site (score: 5)
                                            tctttttgc  CT-rich tract
     atttgttatt  TA-rich tract