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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcgtcttcaaccatctttatgcccattgtcaaactagtttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT

Basic information

species Oryza sativa
transcript LOC_Os10g35170.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G378931_T01 (Zea mays), 3'ss of exon 2
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaactagtttcttcagacttaaag-atgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
||| | | |||||  || |||||| || |||         |||||     |    || ||||||      |  |   ||||    ||  |  ||||||    |||||||||||||||||||||||||| |||||||||||| | || || || |||||||||||||| ||||||||||| |  ||||||||||| |||||||| |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G477770_T01 (Zea mays), 3'ss of exon 2
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaactagtttcttcagacttaaag-atgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
||| | | |||||  || |||||| || |||         |||||     |    || ||||||      |  |   ||||    ||  |  ||||||    |||||||||||||||||||||||||| |||||||||||| | || || || |||||||||||||| ||||||||||| |  ||||| ||||| |||||||| |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTACAATACCAGCCCCTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G535396_T01 (Zea mays), 3'ss of exon 1
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaactagtttcttcagacttaaag-atgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
||| | | |||||  || |||||| || |||         |||||     |    || ||||||      |  |   ||||    ||  |  ||||||    ||||||||||||||||| |||||||| |||| ||||||| | || || || |||||||||||||| ||||||||||| |  ||||||||||| |||||||| |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacatacttaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTCAAGGGAGCATCTGATCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G038848_T02 (Zea mays), 3'ss of exon 13
gtatgcgtcttcaaccatctttatgcc-cat-------tgtcaaac-tagtttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
||| | | |||||  || |||||| || |||         |||||  || | ||     | | | |    |  |   ||||    ||  |  ||||||    |||||||||||||||||||||||||| |||||||||||| | || || || |||||||||||||| ||||||||||| |  ||||||||||| |||||||| |
gtaagtgccttcagtcaactttatcccacataagtatgcatcaaaaataatatcacataattaagatgcacatagaccttacaagct-atgtttcaacattgcagATAGATAATCTTGTGAAGGGAGCATCTGGTCAGGCTTTGCAAAATCTTAATCTGATGATGGGACTGCCTGAGAATATGGGGCTGCAATACCAGCCCCTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 12
gtatgcgtcttcaaccatctttatgcccattgtcaaactagtt----tcttcagacttaaagatgcgaaat--tcttattttc--ttgtt----cttcaactcc-----acagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
|||||    || ||    |||| | |   || |  || |  ||    | |  ||  | |||| |    |||  || || | ||  | | |      |||| |||      ||||| |||||||||||||||||||| |||||||| ||  | ||||| || ||| ||||||||||  |||| ||||| | ||| || |  || |||||  | |
gtatgt---ttaaatttcctttgttcatgttttagaattccttcatatttctagtatgaaaggttattaataatcctactatcactggctaaggtctcaaatccttgctgcagATTGATAATCTTGTGAAGGGAGCTTCTGGTCAAGCCTTGCAGAATCTTAATGTGATGATGGGATTGCCGGAGAATACAGGACTTCTCTACCAGCCATTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: EFJ17635 (Selaginella moellendorffii), 3'ss of exon 11
gtatgcgtcttcaaccatctttatgcccattgtcaaactagtttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
                            |    |||||   | |     || |  ||||    | | | |  ||||||          ||   ||||| |||||||| || || || |||||||| || ||||| || ||||||||||| ||||||||| | || ||||  |  || |||    | || || || |
--------------------------gtaagtccaaacacatctacgtggaatggaagaaaaaacactttccttttct----------cttggcagATTGATAATCTCGTCAAAGGCGCGTCTGGCCAAGCTGTGCAAAACCTCAATCTTATGATGGGCTTTCCAGAGAGTACCGGACTGTTGCAGCAACCTCTGT

upper sequence: LOC_Os10g35170.1 (Oryza sativa), 3'ss of exon 13
lower sequence: EFJ29102 (Selaginella moellendorffii), 3'ss of exon 11
gtatgcgtcttcaaccatctttatgcccattgtcaaactagtttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
                            |    |||||   | |     || | |||||    | | | |  |||||           ||   ||||| |||||||| || || || |||||||| || ||||| || ||||||||||| ||||||||| | || ||||  |  || |||    | || || || |
--------------------------gtaagtccaaacacatctacgtggaatgaaagaaaaaacactttccttttc----------gcttggcagATTGATAATCTCGTCAAAGGCGCGTCTGGCCAAGCTGTGCAAAACCTCAATCTTATGATGGGCTTTCCAGAGAGTACCGGACTGTTGCAGCAACCTCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttcagacttaaagatgcgaaattcttattttcttgttcttcaactccacagATAGATAATCTTGTGAAGGGAGCGTCTGGTCAGGCTGTCCAGAACCTCAATCTGATGATGGGCCTGCCTGAGAACAGAGGGCTGCAATATCAGCCCCTAT
                         ttcttattttcttgtt  CT-rich tract
                      aaattcttattttctt  TA-rich tract