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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaatgatctgctcgacattgcctacttgcgtgatttgtcaggtttcattatggtttctctttggttttcttaccgttatgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA

Basic information

species Arabidopsis thaliana
transcript AT3G26670.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
gtag-aatgat-ctgctcgacattgcctacttgcgtgatttgtcaggtttcattatggtttctctttggttttcttaccgtt-atgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
|||  | |||| |  | | |   |   |  || | |      ||  || |    ||         ||||     | |  |||  || | | |  |||||||| ||||| |||||||||||||| ||||||||||| ||||| || |||||||||||  |||| |||||||| |   || | || ||
gtactagtgattccacccaatgatattttttttcatatccactccagtattgcaattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA

upper sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G477146_T01 (Zea mays), 3'ss of exon 4
--gtagaatgatctgctcgacattgcctacttgcgtgatttgtcaggtttcattatggtttctctttggttttcttaccg-ttatgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
   |   |    | |||    ||  | | |   | |  ||| |    |||    |     | | ||||||      |  | || |  |||  |||||||||| || || |||||||||||||| ||||| ||||| |||||||| || ||||| ||  |||| |||||||| |   || | || ||
gcttcttacttacagctaataataccatccaatcatattttcttttctttttccagctagtgtttttggtacggaaattgattgtttacttgctttgcagTCACTGCTTGCAGCTCTTGGATCAATTCAGTTTGTTTCCAACATTGCTTTTGCCTACTTTGTGTTGAACAAGACTATTTCAGTGAA

upper sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------------------gtagaatgatctgctcgacat-----tgcctacttgcgtgatttgtcaggtttcatt--atgg-----tttctctttggttttcttacc--gttatgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
                                                                                      |    | || || | | |||      |   |  |  | ||||| | | | || |||  ||||     |||   |||| | |  ||||    |  |       || ||||||| ||||| ||||| || |||||  |||| |||||||| ||||| || || |||||  |||| |||||||||||||| || |||||
gtatgtttcccctatttaattgggattttttgttcaataatatatggtgtaaactgtaaattatgatagtatgtagtagttttgcatttttttatttggttggcatatattcggtgaaatatgcgatttcttatgattgatttaatggatgtattttcatttgttctgattacttattcttctgtgtgctgtgcagTCACTTCTTGCAGCGCTGGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTCAA

upper sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------------------------------gtagaatgatctgctcgacattgcctacttgcgtgatttgtcaggtttcatt--atgg-----tttctctttggttttcttacc-gttatgaactct-ctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
                                                                                          | |  || |  |       ||    |  |  |  |||| | | | || |||  ||||     |||   |||| | |  ||||   || |    | | || ||||||| ||||| ||||| || |||||  |||| |||||||| ||||| || || |||||  |||| |||||||||||||| || || ||
gtatgtttcctgcaatttgattggaattttatgttcaatgatttatggtgtaattttatgataatatgtagtagttttgcagttttttttttgtttggttggtatatatttagtgaagtatgctatttcttatgattgatttgatggatgtattttcatttgttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA

upper sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 4
-gtagaatgatctgctcgacattgcctacttgcgtgatttgtcaggtttcattatggtttctctttggttttcttaccgttatgaactct----ctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
  | |   |||    | ||  || | |   |   | |||| |    |||| ||    || |  || | ||   || || || |   || |    || ||||||| ||||| ||||| || ||||| |||||||| || |||||||| |||||||| ||  | || ||||||||||||||  |||||||
gatggttggatgacattgatttttcttttctttctaatttattt--tttcctttctcttgcctttggcttcctttccccttcttttcttttatgctgtgcagTCACTTCTTGCAGCCCTGGGATCAATTCAATTCGTTTCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggtttcattatggtttctctttggttttcttaccgttatgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA
                           ttcttac  putative branch site (score: 2)
                                           ctctctttgc  putative PPT
                         ttttctta  TA-rich tract