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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgcttaactgaattttagctttatctggtcttcaattgaatgatactgatatagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT

Basic information

species Zea mays
transcript GRMZM2G462803_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G462803_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g21080.1 (Oryza sativa), 3'ss of exon 8
gtaagctgcttaactgaattttagctttatctggtcttcaattgaatgatactgatatagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT
|||||||||||   | |  || |  |||||   ||| | || |||||||| || |||||||| | ||  |  ||  ||||| | || || ||||| |||||||| ||||||||||| || ||||||||||| |||||||||||  |  |||||||||||||||| ||||| |||||||
gtaagctgcttg--ttacattcaattttatacagtcatgaactgaatgattctaatatagatattctcatccttgcagAACTCGTTTAATTATTTTAAGAACACCACAAGGTTGAGGGTGATGTTGACAATCACTTTGTCAGAACTTATGTCTGATGTGCAAGTAACTCAGATGAAAT

upper sequence: GRMZM2G462803_T04 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0016g00100.t01 (Vitis vinifera), 3'ss of exon 26
-----gtaagctgc--ttaactgaattttagcttt----atctggtcttc--aattgaatgatactgatatagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT
      | |  |    |||   || ||| |   ||    ||||  | ||   | || ||| |  ||  | |   | ||| | |  ||  ||| | | ||| | || || | | | ||  | ||||| |||||||||||||||||||| ||||| |||||| |||||||||||||||||||||| |||||||
gtatatttatttatagttataggagtttcattcttgttgatcttattttatgacttaaattac-cttttctttttttccctctttttgcagAGCTCCTTCTATTACTTTATGCAGACAGCGAGGTTAAGAGTCATGTTGACAATTACGTTGTCGGAGTTGATGTCTGATGTGCAAGTGACTCAGATGAAAT

upper sequence: GRMZM2G462803_T04 (Zea mays), 3'ss of exon 4
lower sequence: PP1S318_8V6.1 (Physcomitrella patens), 3'ss of exon 27
gtaagctgcttaactg--aattttagctttatctggtcttcaat-tgaatgatactgatatagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT---------------------
  |   |  ||  ||   |  ||  ||||       | ||  || ||      |||   | |  ||| | | |  ||  |||   | ||    |  ||  ||||||   ||||||||||||| ||| |||| || ||| | ||||||||| |||| ||||||||||| |||||||  | |                      
--attttatttgtctacaagcttgtgcttcgagaaatattggatgtgggaccaactctaaaaattgtgcatcttcttgcagacatctttttgttgctttcagAACATCTCAAGGTTGAGAGTTATGCTGACTATCACTCTATCAGAGTTGATGTCAGATGTGCAAGTCACTCAAACAAGAATGGATGGCGTGCTGGAAAGGA

upper sequence: GRMZM2G462803_T04 (Zea mays), 3'ss of exon 4
lower sequence: PP1S302_69V6.1 (Physcomitrella patens), 3'ss of exon 27
-----------gtaag-ctgcttaactgaattttagctttatctggtcttcaat-tgaatgatactgat---------atagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT
            | || ||  ||        || |   || |    |   |||| |||||  |   ||          | | |||| | | |  ||  |||   |||||   |  ||  ||||||   ||||| ||||||| ||| |||| || ||| ||||||||||| |||| ||||||||||| || ||||  ||| 
attaggcgtcaatgagtctatttcgtctgtcttgaagcttgttctattcacaatatgaattttttggaacgagctttgacaaatgtacattttcttgcagACTTCATTCTGTTTCTTTCAGAACATCTCAAGGCTGAGAGTTATGCTGACTATCACTCTGTCAGAGTTGATGTCCGATGTGCAAGTCACGCAAACAAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttatctggtcttcaattgaatgatactgatatagatgtccttgtggttctagAACGCATTCAACTATTTCAAGAACACTACAAGGTTGAGAGTCATGTTGACAATTACTTTGTCAGAGTTGTTGTCTGATGTGCAAGTGACTCAAATGAAAT
                          tactgat  putative branch site (score: 2)
                                        tccttgt  putative PPT
                aattgaat  TA-rich tract