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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatattgaactgtacaccaaaggctgcaaactttttccctctgtattcagatggctaaacatattttgttttccccctttagCATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG

Basic information

species Zea mays
transcript GRMZM2G142334_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 2
gtatgtatattgaa----ctgtacac-----caaaggctgcaa----actttttccctctgtattcagatggctaaacatattttgtttt--ccccctttagCATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG
|||||||||| |||    |||| ||      ||||||  |  |    || || ||         || |||| || |||||||||| |||      || |||| |||||| ||||||||| |||||||||| |||||||||  | |||||||||||||| |||||||||||||||||||||||||||||||| ||||||
gtatgtatatggaactgactgtgcattttcacaaaggaagtcatatgaccttgtcttgtctcgctctgatgactgaacatattttctttctgtttcccttagAATGCCTGTAGAAAAGAGGCTGAGAAAGTTGATTATTCCGTTAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCATGAACCAGAG

upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
---------------------gtatgtatattgaactgtacaccaaaggctgca-aactttttccctctgtattcag-atggctaaacatattttgttttccccctttagCATGCC---TCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG
                     | | || | ||    |  | |  |||  |   | |  ||  |   | || | | |  || |  | |  ||| || | |    | |  ||||||     || ||||  |||   ||||     || ||||||||  | |||||||||||||| || |||||||| |||||||| || ||||||||||||
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttgttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG

upper sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 2
gtatgtatattgaactgtacaccaaaggctgcaaactttttccctctgtattcagatggctaaacatattttgttttccccctt-tagCATGCCTCTA---GAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG
|||||| |  |  |||||   |       |       |      | | | |   | |  ||  |  | || | | || | | || |||||||     |   ||| ||||   ||||  || ||||||||    ||||||||||||||||| | ||| ||||| |||||||| |||||||| ||||||
gtatgt-tgctagactgtttgcttgtttattttgttgtcagatgtatttgtgttggtttctttatgtgttgtttgtttcactttgtagCATGGTGGGAATCGAAGAGATTTAGAGATGGCGGATTATTCACCAAGCAGGCATCCTGAGTTCCACTATAAAACCGAGTTTCAGAGCCATGAACCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactttttccctctgtattcagatggctaaacatattttgttttccccctttagCATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAG
                         ggctaaa  putative branch site (score: 3)
                                catattttgttttccc  CT-rich tract
                            taaacatattttgttt  TA-rich tract