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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtatgctatgttaggcttgtttactttattttattattgcagtttgagtacctatgtcatgattttatttgatgttatgttctggtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC

Basic information

species Zea mays
transcript AC212184.3_FGT010
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 2
agtatgctatgttaggcttgtttactttattttatta---ttgcagtttgagtacctatgtcatgattttatttgatgttatgttctggtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
 |  ||||    |    ||    | ||||| | || |   ||| |  ||  || |     |||  || || |       ||| || | || |    || |||| ||||||| || |||| |||||||||||| |||||||| |||||||||||  |||||||| |||||||||| ||||| || |||||||||||||||||||
-gggtgctcccatttatttaccaa-tttatataatcacatttgaatattttgtcctgtaatcaaaatattgtgcttaactat-ttgtcgttacctttcctcagGGTTATGTGGTTTACCGTGTCCGTGTGAGGCGTGGTGGCAGGAAGAGGCCAGTGCCCAAGGGTATTGTCTACGGCAAGCCCAAGCACCAGGGTATCACCC

upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 2
-agtatgctatgttaggcttgtttactttattttattattgcagtttgagtacctatg-tcatgattttatttgatgttatgttctggtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
    |   | | ||    |  |    | |  || | | ||| |  ||  |  |||||  ||   || || |       ||| || ||     |    ||||| | ||||| || |||| ||| || || || |||||||| |||||||||||  |||||||| |||||||||||||||| || |||||||||||||| ||||
agccaaaatgtattcacatgctgctgtctgattcacttttgaatgttttggccctataatccaaatattgtgcataactattttttgac--cttgctttcagGGCTATGTGGTTTACCGTGTTCGCGTCAGGCGTGGTGGCAGGAAGAGGCCAGTGCCCAAGGGTATTGTCTATGGCAAGCCCAAGCACCAGGGTATTACCC

upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: AT4G16720.1 (Arabidopsis thaliana), 3'ss of exon 2
agtatgctatgttaggcttgtttactttattttattattgcagtttgagtacctatgtcatgattttatttgatgttatgttctggtaattcatct---tcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
 ||  |    |  |    ||    | || ||| || |||| |   |   ||     |||   | ||   ||     | |  |   |   || || |   |||| | | ||||||||||| ||| |||||||||||||||||  | ||||||||  |||| ||| ||||||| ||||| || ||||   |||||||  | || |
-gttagtggag--aaatatggaagcgttgtttgatgattgaatcatttttaatctagtctcaaattctgttacaaatctagttgagatgttgatgtatgtcagGGCTTTGTTGTGTACCGTGTACGTGTGAGACGTGGTGGACGCAAGAGGCCAGTGCCTAAGGGTATTGTGTATGGTAAGCCAACAAACCAGGGAGTGACAC

upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: Vv15s0021g02480.t01 (Vitis vinifera), 3'ss of exon 2
---agtatgctatgttaggcttgtttactttattttattattg-cagtttgagtacctatgtcatgattttatt-tgatgttatgttctggtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
      |   ||||  |  || |   | || |||| || |    ||    ||  |    | | |   ||| ||| | |||  |    ||  |  |||   || || | |||||| | || | ||| ||||| |||||||||||| ||||||||||| | |||||| | ||||| ||||| || || |   |||||||| ||||||
tgtttaaaattatgacaaactggccca-ttaatttgataagcatcaagacgatgattctttttac--tttgattataatgccaaacactatt--ttctattttagGGGTATGTTATCTATCGTGTTCGTGTTAGACGTGGTGGTCGGAAGAGGCCTGTTCCCAAGGGCATTGTTTATGGAAAGCCTACAAACCAGGGTGTCACCC

upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s0551g00020.t01 (Vitis vinifera), 3'ss of exon 2
---agtatgctatgttaggcttgtttactttattttattattgcagtttgagtacctatgtcatgattttatttgatgttatgttctggtaattc-atcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
   | |   || | |    |  |||    |  || || | |   ||  ||        ||  ||   |  |    |  | |   |||||   | |  | ||||| |||||||  | || | ||| ||||| |||||||||||| ||||||||||| |||||||| | ||||| ||||| || || |   |||| ||| | ||||
tctaat-cactctctcgatccagttctgctgcttgtaatctataagcctggaattggttgctatatctacac---aaatgacactctggatgtactgttttcagGGTTATGTGATTTATCGTGTTCGTGTTAGACGTGGTGGTCGGAAGAGGCCTGTGCCCAAGGGAATTGTTTATGGTAAGCCCACAAACCAAGGTGTTACCC

upper sequence: AC212184.3_FGT010 (Zea mays), 3'ss of exon 1
lower sequence: PP1S7_364V6.1 (Physcomitrella patens), 3'ss of exon 2
------agtatgctatgttaggcttgtttactttattttattattgcagtttgagtacctatgtcatgatt-ttatttgatgttatgttctg-gtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
      |  |   |||| | |   |   |  ||| |||    | |   ||  |||||    ||   |  || ||| |  |   |||  | || || |        ||| |||| || ||||| |  ||||| ||  | || || ||||||||||||||| |  ||||| ||||||| ||||| || || ||| ||||||||||||| |
ttgatgatgaaaatatggtcgatattcgtcttttgtttatcaagtatggtcagagtattagtgatgtacttgttactgaacactatcctgtgtgtga--------cagGGTTACGTGGTGTATCGCGTCCGCGTACGCCGCGGGGGTAGGAAGAGGCCTGTTGCCAAGGGTATTGTGTATGGAAAACCTAAGAACCAGGGTATCACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtacctatgtcatgattttatttgatgttatgttctggtaattcatcttcagAGTTATGTTGTGTACCTTGTCCGTGTGAGACGTGGTGGTAGGAAGAGGCCTTTGCCCAAGTGTATTGTCTATGGCAATCCAAAGCACCAGGGTATCACCC
                      atttgat  putative branch site (score: 5)
                                            ttcatcttc  putative PPT
                 attttatttgatgtta  TA-rich tract