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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagaagtcagcgaatgcttgaaaataatcaactaaaacatgttcagataaagatactctcatcaacactcactagcttttcacataaattcttataacagTGGTGCAGATTTATATTCCAAGTATGTTGGAGAAGGGGAAGCTCTGTTGCGTAGAACATTTCAGAAAGCTCGTCTTGCTTCTCCCAGCATTATATTTTTT

Basic information

species Zea mays
transcript GRMZM2G149994_T05
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os04g42110.1 (Oryza sativa), 3'ss of exon 8
cagaagtcagcga-atgcttgaaaataatcaactaaaacatgttcagataaagatactctcatcaacactcactagcttttcacataaattcttataacagTGGTGCAGATTTATATTCCAAGTATGTTGGAGAAGGGGAAGCTCTGTTGCGTAGAACATTTCAGAAAGCTCGTCTTGCTTCTCCCAGCATTATATTTTTT
|       |   | ||   |  ||      |||   | ||| || || | |  ||||  || || |   |        ||||  | | ||| | | ||||||||||| || ||||| |||||||||||||| ||||| |||||| |||||||  | ||||| ||||  || |||||||||||||| |||||||||||||||
ctagtccaaataatatagctagaacatgctaaccggatcattttgagttcagtatacagtcttctatgttgttctaaatttcttacacattttca-aacagTGGTGCTGAGTTATACTCCAAGTATGTTGGTGAAGGTGAAGCTTTGTTGCGACGTACATTCCAGATGGCACGTCTTGCTTCTCCAAGCATTATATTTTTT

upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g31220.1 (Oryza sativa), 3'ss of exon 4
cagaagtcagcga-atgcttgaaaataatcaactaaaacatgttcagataaagatactctcatcaacactcactagcttttcacataaattcttataacagTGGTGCAGATTTATATTCCAAGTATGTTGGAGAAGGGGAAGCTCTGTTGCGTAGAACATTTCAGAAAGCTCGTCTTGCTTCTCCCAGCATTATATTTTTT
|       |   | ||   |  ||      |||   | ||| || || | |  ||||  || || |   |        ||||  | | ||| | | ||||||||||| || ||||| ||||||||||| || ||||| |||||| |||||||  | ||||| ||||  || |||||||||||||| |||||||||||||||
ctagtccaaataatatagctagaacatgctaaccggatcattttgagttcagtatacagtcttctatgttgttctaaatttcttacacattttca-aacagTGGTGCTGAGTTATACTCCAAGTATGTCGGTGAAGGTGAAGCTTTGTTGCGACGTACATTCCAGATGGCACGTCTTGCTTCTCCAAGCATTATATTTTTT

upper sequence: GRMZM2G149994_T05 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA02G13160.1 (Glycine max), 3'ss of exon 9
cagaagtcagcgaatgcttgaaaataatcaactaaaacatgttcagat-aaagatactctcatcaacactcactagcttttcacataa--attcttataacagTGGTGCAGATTTATATTCCAAGTATGTTGGAGAAGGGGAAGCTCTGTTGCGTAGAACATTTCAGAAAGCTCGTCTTGCTTCTCCCAGCATTATATTTTTT
      ||     ||  ||     |  |      ||    ||||  || | | |     |    || | |    |  |||  |  |||  | |  |  |  ||||||||||| || ||||| | |||||||||||| ||||||||| || | |||| ||||||||||| ||| || |||||  | || || || ||||| |||
---ttttctttacatcttttttttttttttttgcaattcagttcctattagaaactgatttccaaataatgtaaaaatttgtaagtaatgaatggtgaattagTGGTGCAGAATTGTATTCAATGTATGTTGGAGAGGGGGAAGCTTTGCTTCGTAAAACATTTCAGAGAGCACGCCTTGCGGCACCTAGTATAATATTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataaagatactctcatcaacactcactagcttttcacataaattcttataacagTGGTGCAGATTTATATTCCAAGTATGTTGGAGAAGGGGAAGCTCTGTTGCGTAGAACATTTCAGAAAGCTCGTCTTGCTTCTCCCAGCATTATATTTTTT
                    cactcac  putative branch site (score: 2)
                                           ttcttat  putative PPT
                               ttttcacataaattct  TA-rich tract