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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttgttaaattttgatccatgtttttcgaatgtactttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG

Basic information

species Zea mays
transcript GRMZM2G060611_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os05g44360.2 (Oryza sativa), 3'ss of exon 3
gtaaacttgttaaattttgatccatgtttttcgaatgtactttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
||||  |     |||||  | ||||||||| | ||||| |||| ||||||    || |  ||| |  ||||||| ||||||||||| ||||||||||| ||||| ||||| ||||| ||||| || ||||||||||| ||||||||||||||||| || || |||||||
gtaatatctgataatttgaacccatgttttcc-aatgtcctttataatcaagcaac-aaccttgtgcagGTCTGTTCTTGGGGAGGTTACACATTCATCATCAACCTTATTCCAATTCATGTACTGTTGTGCATTGTCACTGGTCGTTATTCTTCACGGCTTTACATTG

upper sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 8
-------------------gtaaacttgttaaattttgatccatgtttttcgaatgtactttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
                    | | |||| | |  |||| | |       ||  |||||  || |  ||   ||  ||   | ||  |||| ||||| |||||||| ||||| || || || |||||||| ||||||||||| ||||||||||| ||||||||||| |||||||| || || |||||||
gtaagcttttataatactatttatcttggttatctttgcttctgccccctcttatgtatgttatcttcgc-ttctta---tctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCAATGCATGTTCTCTTGTGCATAGTAACTGGTCGCTATTCTTCTCGACTGTACATTG

upper sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 8
----------gtaaacttgttaaattttg--atccatgttttt--cgaatgtactttgtaatcatatta-ctaggctt------ttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
           |||   | || |  || |  |||  ||  | |  |   | |  ||| |  | || ||| ||  ||||      ||  |||| ||||| |||||||| ||||| || || || |||||||| || |||||||| ||||||||||| ||||| ||||| |||||||| || || |||||||
gtaagcttttataatactatttatcttggttatctttgcctctgtcccctcttatttatgtttatgttatcttcgcttcttatctttcagGTTTGCTCATGGGGAGGGTACACTTTTATCATTAATCTTATTCCGATGCATGTACTCTTGTGCATAGTAACCGGTCGCTATTCTTCTCGACTGTACATTG

upper sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------gtaaacttgttaaattttgatccatgtttttcgaatgt-actttgtaatca--tattactaggcttttct--------agGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
           |  || |    |  ||||   |  |   | |  | | | | ||| |  |||  | ||||| |  |||| |        |||| || || |||||||| ||||| |||||||||||||| || |||||||| || || ||||||||||||||||| || || ||| | || || |||||||
gtacgacctgcgataattcaccattttttctccttttcctcttcagtattattttctgctcagtttttacttgttttttttccatcattagGTATGTTCATGGGGAGGTTACACCTTCATTATCAATCTGATACCAATGCACGTGCTTTTGTGCATTGTAACTGGGCGATACTCTCCCCGACTGTACATTG

upper sequence: GRMZM2G060611_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 8
----------gtaaacttgttaaa-----ttttgatccatgtttttcgaatgtac-tttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
          ||    |||||  |     ||||  |||   ||| | |  | ||  ||| |     ||||| |   |||||  |||| |||||||||||||| ||||| || |||||||| ||||| ||||||||||| ||  | ||||| ||||||||||| |||||||| || || |||||||
gtagggttgtgtgccattgttgcaagtctttttactccccctttatggtgtttatgtttttgggtgtattatttc-ctttttcagGTTTGCTCTTGGGGAGGATACACTTTTATTATCAACCTTATTCCAATGCATGTGCTTCTTTGCATAGTAACTGGTCGCTATTCTTCTCGACTTTACATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgatccatgtttttcgaatgtactttgtaatcatattactaggcttttctagGTCTGCTCTTGGGGAGGCTACACATTCATTATCAATCTTATCCCAATGCATGTCCTCTTGTGCATTGTAACTGGTCGTTATTCTTCGCGTCTCTACATTG
 ttttgat  putative branch site (score: 4)
                                              cttttct  putative PPT
                          tttgtaatcatatta  TA-rich tract