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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG

Basic information

species Zea mays
transcript GRMZM2G348602_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g54030.1 (Oryza sativa), 3'ss of exon 1
-------------------------------------------------------------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                                                                         ||    ||   || |  |  |||     |  | |   ||  |  | || |||||||  |||||||||||||||||||||||||||||||||||||||||||||| || ||||| |||||||| |||||  |||||||||| |||||||| ||||| |||||||| ||
gtaatcatacgaacctttcttcagtaatttccaatcatcctgcataatttcagcttcttgttataccatctaggtttgtttctgttatcaatgacagtcattttttttatttggtgatgctgacatatagctgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATTTCAGTTGGTGATGATGCCATAGCGGTAAAGAGTGGGTGGGATCAATATGGGATTGCATATGG

upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 3
------------------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctat---ttctcacatata-agtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                               |||| || |  |  |    |    |  ||      |||   ||     || |  | ||  || |  ||||| |||||| ||||| |||| || ||| | || ||||||   || || ||||||||||| ||| |||| ||||| |||||||||||||| ||||  || ||
atcagcctgagaggtatctaacttttaactttaattttcatctaatt-ttattgtttgtatgaagaattttaataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG

upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 3
----------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatata-----------agtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                      ||     || | | || | |  |  | ||  | |  ||    | || | | | | |            || |   |||| |||||| ||||| || | || ||| | || ||||||   || || ||||||||||| || ||||| ||||| |||||||||||||| ||||| || ||
tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG

upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G19170.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                        |  | |    || ||    ||  ||  |||      ||      |||    |||    |||  ||||||| ||  ||||| || | |||||| | || |||||       || |||||||| || || ||||||||||| |||||||||| ||| |||||||| ||
gtatgttcatttaccgcttatatctgttttccggttattctgtactcatt-taaaacgttttgaaccatcttgtttatttccgtaaacagATTCGTGCGAGGATATGGTAATTGAGGACTGTTACATTAGCACCGGGGATGATGCGATCGCGATAAAGAGTGGATGGGATCAGTTTGGGATTGCATATGG

upper sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataa-gtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                                  |  |  | |||| || |    | ||   | | |   |  ||    |  |  | ||  |  ||  ||||||| ||| ||||| || | |||||  | || || ||    ||||| ||||||| ||| || ||||||||||||||||||||||||||  |||| || ||
gcatttgccctagtacttccaagttcatgaatgtttttccttaattatttatattatatt-cagtatcagtgacttcaaccaatctttattgcataaacagATTCATGTGAGGATATGGTGATTGAAGACTGTTATATTAGTGTTGGAGATGATGGAATTGCAATAAAGAGTGGTTGGGATCAGTATGGAGTTGCCTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
                                ttctcac  putative branch site (score: 2)
          aaatcataat  TA-rich tract