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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccaacataatttatacgtaggcttttccatgcaatcttgaaaataagaagttgacaataaaagttctatggtcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT

Basic information

species Zea mays
transcript GRMZM2G147884_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 3
gtatgccaacataatttatacgtaggcttttccatgcaatcttgaaaataagaagttgacaataaaagttctatggtcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT
||  | ||| ||||| | | | |   |||||   | ||| ||| |||| ||| || |||||   |   ||||    | | ||||| | ||  ||||||| ||||||||||  ||||| |||||||||||||||||||| |||||| | || || |||||||| || ||||| ||||||||||
gttcgtcaaaataatat-tccatgtacttttgtctacaaccttaaaaaaaaggagctgacatagaggtttctgaatttgcagGAACGTGATGGCATGCGTTTTGTTGAAGTGGTGCTATTGGAGCCAGAAAAGAATGTCGTGGCATTAGCTGATGCCTACTTTTTCCCACCATTCCAACCAT

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 2
----------------------------------------gtatgccaacataattt---atacgtaggcttttccatgcaatc-ttgaaaataagaagt----tgacaataaaagttctatg-gtcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT
                                        |||       ||  |||   | |  ||      |  | | | |  ||    || | |  |    |  |  |    ||  |||| ||   ||   ||||| || ||||||||  |||||   ||  |  |||||||||| || |||||||| |||||||| || || || ||||||||||||||||||||||
gttgtcaactatgattttttttaatgaagtggatatacttgtagatttggatggttttagaaaattaaatgagttgaagtagtgattacttatgatatctctcctccctctggttgtattatgtgttacagCTTAGAGATAGTATGCGCTTCATTGAAATAGTTTTACTGGAGCCAGATAAAAATGTTGTTGCACTGGCAGATGCATATTTCTTTCCACCTTTCCAACCAT

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G18810.2 (Glycine max), 3'ss of exon 2
gtatgccaacataatttatacgtaggcttttccatgcaatcttgaaaataagaagttgacaataaaagttctatg-gtcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT----------------------------------------------------------------------
                                                        |  |  |    ||  |||| ||   ||   ||||| || ||||||||  |||||   ||  |  |||||||||| || |||||||| |||||||| || || || ||||||||||||||||||||||                                                                      
-----------------------------------------------------tcctccctctggttgtattatgtgttacagcttagagatagtatgcgcttcattgaaatagttttactggagccagataaaaatgttgttgcactggcagATGCATATTTCTTTCCACCTTTCCAACCATCATTACTTCCAAGAGCTAGAGGAGGACCTCTGATTCCAGCTAAACTCCCTCCAAGATGTGCCAGGCTTGT

upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 1
--------------------------------------------gtatgccaacataatttatacgtaggcttt----tccatgcaatc-ttgaaaataagaa-gttgacaataaaagt-tctatgg-tcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT
                                             | |    | |||||| | |   || || |    |    |||||  |    ||| |     ||  |   ||  || | |||   |  |||   |||||||| || |||||| ||||||  ||  ||||||| ||||| ||  ||||||| |||||||| || || || |||||| | |||||||||||||
gttaactatgccatgaaatgttcgattaaaagatatatttgtatttttatacagataattaaaattgagtctatgtattttgagcaattgtccctaatgattctatttccctcaattgtctttatatcttatagCTCAGAGACAGTATCCGCTTTATTGAAGTAGTTTTGTTGGAACCAGATAAACATGTTGTTGCACTGGCAGATGCTTATTTCTTTTCTCCTTTCCAACCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccatgcaatcttgaaaataagaagttgacaataaaagttctatggtcgtagGAAAGAGACAGCATGCGCTTTGTTGAAGCTGTGCTGTTGGAGCCAGAAAAGAATGTTGTGGCACTGGCCGACGCCTACTTCTTTCCACCTTTCCAACCAT
                          agttgac  putative branch site (score: 4)
          aatcttgaaaataa  TA-rich tract