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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actatatttccagatatgtatatcctaattgtcttgttcagtgcctactgttgcatgcaactatgaaaaatactaacataaagtttcaaattttatgcagGCAACCTGTATACCACATGTTCTCATGGCAAATGATGTAATTGTCGCAGCAGAGACTGGTAGTGGCAAAACCCATGGTTACCTTGTACCTTTGATTGAAA

Basic information

species Zea mays
transcript GRMZM2G100043_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G100043_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g21520.1 (Oryza sativa), 3'ss of exon 1
-actatatttccagatatgtatatcctaattgtcttgttcagtgcctactgttgcatgcaactatgaaaaatactaacataaagtttcaaatttt--atgcagGCAACCTGTATACCACATGTTCTCATGGCAAATGATGTAATTGTCGCAGCAGAGACTGGTAGTGGCAAAACCCATGGTTACCTTGTACCTTTGATTGAAA
 ||| | ||    ||  | | |  | | |  |  || |  | ||  |  |  |   |||    |  || | |||| ||  |    |||||||  |  ||||||||| ||||||||||||| |||||||   |||| ||||||||||| || || |||||||| ||||||||||| |||||||||||||| || ||||||||||
tactct-ttctaggacctatgtgccattagagatttatata-tgtatttttctaattgccctca-aaatagtacttacggattacttcaaatgctgaatgcagGCAGCCTGTATACCACACGTTCTCACAACAAACGATGTAATTGTTGCTGCTGAGACTGGGAGTGGCAAAACACATGGTTACCTTGTTCCATTGATTGAAA

upper sequence: GRMZM2G100043_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G59990.1 (Arabidopsis thaliana), 3'ss of exon 1
-actatatttc-cagatatgtatatcctaattgtcttgttcagtgcctactgttgcatgcaactatgaaaaatactaacataaagtttcaaattttatgcagGCAACCTGTATACCACATGTTCTCATGGCAAATGATGTAATTGTCGCAGCAGAGACTGGTAGTGGCAAAACCCATGGTTACCTTGTACCTTTGATTGAAA
 ||  | |||     ||  | | |    |||  | || | |  |    | | |   |||     ||    |||   |   || | | |    ||   || ||||    || |||||   | |  |    |  || ||||| ||||| |||||||| ||||||||||| ||||| |||||||| ||||  ||  | |||||  
gacattgtttagtgaatgggaaaaaaggaatcatttt-tgcgtttttgattctgaaatgtt-tgattgtgaatctgattttatactgttttcttacctgtagGCTGTTTGCATACCGTCTATATTGTCTGGGAAAGATGTGATTGTTGCAGCAGAAACTGGTAGTGGTAAAACACATGGTTATCTTGCTCCAATAATTGATC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactgttgcatgcaactatgaaaaatactaacataaagtttcaaattttatgcagGCAACCTGTATACCACATGTTCTCATGGCAAATGATGTAATTGTCGCAGCAGAGACTGGTAGTGGCAAAACCCATGGTTACCTTGTACCTTTGATTGAAA
                         tactaac  putative branch site (score: 0)
                tatgaaaaatactaac  TA-rich tract