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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcttacaatctctaactaatgaaaagttgacattttccaaagataaatactacatctgcaagagtaccttttcagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG

Basic information

species Zea mays
transcript GRMZM2G094309_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094309_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g38150.2 (Oryza sativa), 3'ss of exon 8
-----------------------------------------gtgagttcttacaatctctaactaatgaaaagttgacattttccaaagataaatactacatctgcaagagtacctttt---cagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG
                                          |  | | | | | |    |   | |  | | |  | ||  |  |   |||   | |  | |   |||| | ||  ||   |||||| ||||  ||||| |||| ||||||||||| || || || ||||| || ||  || ||||||||||| | |||||||||||||| |||
gtgaatgccagcctttttaatagaaactctttttaatagaaatctgctatgagatttcacagaaattctagattctagatgatatatccatagtgattttaacaaaaagatttcccctttgccagGTTGCTGATGATTTAGTTCTTGAGAAAACATCTTGCCCATTAGGTGTTCTCTTAATTGTTTTTGAGTCCCGACCTGATGCCTTGGTTCAG

upper sequence: GRMZM2G094309_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 6
--------------gtgagttcttacaatctctaactaatgaaaagttgacattttccaaagataaatactacatctgcaag-agtacctttt-----cagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG
                 | |||| | ||  | | | |||   |    |   |||   |||   | | |    ||  |   |  | | |  |||     ||| |  | || ||  | || || ||||||| |||||||||||||||||||||  ||||||| || |||||  | || |||||| | || |||
gcagttattcaataacaaattct-agaaaatgttattaaaacatgcatcctattgctcaacactcattttggcaattctgattactgctctttgtgtccagCTAGCAGATAAACTCATCCTGGAGAAAATATCATGTCCTTTGGGTGTCCTCCTGGTTATATTCGAGTCTCGACCAGATGCCCTTGTTCAG

upper sequence: GRMZM2G094309_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G24530.1 (Glycine max), 3'ss of exon 10
----gtgagttcttacaatctctaactaatga----aaagttgacatttt-----ccaaagataaatactacatctgcaagagtacctttt------cagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG
         || |  |||    | | |||||     ||| |  |||||||      |||   |   |   ||   |   |  ||   | |       ||| |    || ||  | || || ||||| | |||||||||||||||||||||  ||||||| ||||||||  | ||||||||| | || |||
agtcactgcttttaccaaaaaatgaataatgttattaaactatacattttattgctcaacactctttgtgacggttctgattgtttttctctttgtccagCTAGTAGATAAACTCATCCTGGAGAAGATATCATGTCCTTTGGGTGTCCTTCTGGTTATATTTGAGTCTCGACCTGATGCCCTTGTTCAG

upper sequence: GRMZM2G094309_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA03G12240.1 (Glycine max), 3'ss of exon 9
-gtgagttctta---caatctctaactaatgaaa--agttgacattttccaaagataaatactacatctgcaaga----------gtacctttt---cagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG
 || | | |||    |||    | | |||||  |  |    | |  ||| |  | | || |||   | ||  ||           || |  |||   ||| |    || ||  | || || ||||| |||||||||||||||||||||||  ||||||| ||||||||  | ||||||||| | || |||
tgtcactgctttgaccaaaaaatgaataatgttattaaactatacgttctattgttcaacactctttgtgacagttctgattgttgttctctttgttcagCTAGTAGATAAACTCATCCTGGAGAAGACATCATGTCCTTTGGGTGTCCTTCTGGTTATATTTGAGTCTCGACCTGATGCCCTTGTTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaaagttgacattttccaaagataaatactacatctgcaagagtaccttttcagGTTTCTGAAAATTTAATTCTCGAGAAAACATCATGTCCTTTGGGTGTCCTATTGGTTATTTTTGAGTCCAGGCCTGATGCCTTGGTCCAG
    agttgac  putative branch site (score: 4)
                                            taccttttc  putative PPT
                  aaagataaatacta  TA-rich tract