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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC

Basic information

species Zea mays
transcript GRMZM2G014573_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
            ||      |  ||   | ||     |  || |    | |||| | |||  || || | | ||||  |  ||   ||||| |||||||||||||||| ||| |||| |||| |||||||||||||||||||||||  || || |||||||||||||| |||||||| || |||  |||
-----------gtaagtggtcgagtgataatta----agcatatact-tagatcaatagtcaattggttaataaactgctctgctgcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC

upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G14050.1 (Glycine max), 3'ss of exon 6
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
||||  |  |     ||||  |||||   | |    | || |   || |  ||  | | || |  |  | ||     |        |||| ||||||||||||||| |||  ||||| || | | ||||||||||||| ||  | |  || ||||| ||||||||||||||||||||||||||   |||
gtaacgttgctg---ccaa--atgtt---gctcatatgctgtaattatt--attgatatttcactgtattaagggtgttatgcctgcagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCACTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCAGTCAATCCAAC

upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G40760.1 (Glycine max), 3'ss of exon 6
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
|||| ||  |||   ||||   | |   | ||||     ||  ||| || ||    || ||    |  | || |   | |   |  |||| ||||||||||||||| |||| ||||| |||| | ||||||||||||| ||  | |  || ||||| || |||||||| ||||| || || ||   |||
gtaacatgacca---ccaaatgtttgcaactttg-----taattgttattga----catttctctgtattaacagtgttgtgcttgcagATGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTACTACCTTCGAAAACTGCTATTGCCCCTGTTAATCCAAC

upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||| | ||||||||||||| ||  | |  || ||||| ||||||||||| ||||  || || ||   |||
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC

upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 5
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
|||| ||  |     ||||   |   ||| | ||||||   | | || |||   | || |||||      ||     |        |||| ||||||||||||||| |||  ||||| || | | ||||||||||||| ||  | |  || ||||| |||||||||||||||||||| |||||   |||
gtaacattgctg---ccaaatgttgctca-tatgcttaaattat-tattggtatttcactttatt-----aacggtgttatgcctacagAAGGTGCAAGGGCTGCTTTGAGCCTGTCTGGTACCATGCTTGGATATTACCCATTGAGAGTGCTACCTTCAAAAACTGCCATTGCACCGGTCAATCCAAC

upper sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 6
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |      |||| ||||||||||||||| |||| ||||| |||| | ||||||||||||| ||  | |  || ||||| ||||||||||| ||||| || || ||   |||
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgcagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGCCCCTGTTAATCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC
 tgcttac  putative branch site (score: 2)
                                    aaaaacat  TA-rich tract