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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgctgtattgttgtaagatgtgaattttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT

Basic information

species Arabidopsis thaliana
transcript AT3G11130.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
------------------gtatgtgctgtattgttgtaagatgtga-attttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
                  || ||  ||    | || |   |  |   |  ||  |  | | | | |     || |||     | | ||||||||  ||| || |||| |||||| || || |||||||| ||||| ||||| |||||||||||||| || ||||| || || ||||||||| | ||  | |
gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgt-catatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
gtatgtgctgtattgttgtaagatgtgaattttattgtttaatgtgacactgacg--------tgtc----catgtct-----ttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
|||| ||||  ||| | ||   |  |    ||| ||||    | | ||| ||           | ||    ||||| |      ||||||||  ||| || |||| |||||| || || |||||||| ||||| ||||| |||||||||||||| || ||||| || || ||||||||| | ||  | |
gtatttgctacatt-tagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
gtatg-tgctgt-attgttgt--aagatgtgaattttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
||||| || ||| |||||| |  |  |  || |  || ||   |||| ||      | |  | | | | | | |||| |   || || || ||||||||| | ||||||||||| ||||| ||||| ||||||||||| | ||| || ||||| |||||||||||||| || ||||
gtatggtggtgtcattgttttctataacttggaacttcttaaataat-tgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 19
gtatg-tgctgt-attgttg--taagatgtgaattttattgtttaat--gtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
||||| || ||| | ||||   ||  |  || |  |||||    |||   |||||  | | |    |||| | | |||| |   || || || ||||||||| | || |||||||| ||||| ||||| ||||||||||| | ||| || || || |||||||||||||| || ||||
gtatggtggtgtcagtgttttctataacttggaacttattaaacaattgttgacaaag-ctttcttatgtgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGCGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAGGGACTGTACTTTTTCCTTGGATCAT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 18
gtatgtg-ctgt-attgt----tgtaagatgtgaattttattgtttaatgtgacactga---cgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
|||||   || | |||||    | ||| |||  | | ||| | ||| || ||| |||||   | |    |  ||| |  ||| |   || || || ||||| ||| | || |||||||| ||||| || || |||||||| |||| ||| || ||||||||||| |||||||| || ||||
gtatggaactatcattgtcttctataacatggaattattaatatttgat-tgaaactgaaagcttactaacttctgtctagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 18
gtatgtg-ctgt-attgt----tgtaagatgtgaattttattgtttaatgtgacactg---acgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
|||||   || | || ||    | ||| |||  | | ||| | ||| ||     ||||   || |    |    | |  ||| |   || || || ||||| ||| | || |||||||| ||||| || || |||||||| |||| ||| || ||||||||||| |||||||| || ||||
gtatgaaactatcatcgtcttctataacatggaattattaatatttgattgataactgaaaacttactaactaatatttagGTTGCTAAAGAATATTGTGAACAATTGGGCGTTGATGCTTGCATAAAGCTTTTTGAGCAGTTCAGGTCATATGAAGGGCTGTATTTTTTCCTGGGATCAT

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
----gtat-gtgctgtattgttgtaagatgtgaattttattgt---ttaatgtgacactgacgtgtccat--gtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
      ||  |  | |  || || | |||    ||    ||||    | || |    ||  ||     ||  |||| ||||| ||  ||| || || | ||||||| | |||||||||  |||| | ||||||||||||||||| || || ||||||||  |||||||||| || ||||| |
gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagatgtgaattttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT
                              cactgac  putative branch site (score: 2)
                                            tgtcttt  putative PPT
     atgtgaattttattgt  TA-rich tract