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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttttttcttttcgtgttccttagacatgcttcttactatcttctgtacttgatttgcttgagttaatattgtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA

Basic information

species Arabidopsis thaliana
transcript AT5G18620.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 7
-----------------------ttttttt----tcttttcgtgttcct--tagacatgcttcttactatcttctgtacttgatttgcttgagt--taatattgtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
                       |||||||    | |   | || ||    ||   ||| |  ||   ||| ||     ||  |||||||   |  | ||| |   || ||   ||   |      | |||||||||||||||||  | ||| | || ||||| ||  |  | |||||  | ||||| || || ||||| ||||| || ||||||||||||||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacatcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: 13113.m00246 (Oryza sativa), 3'ss of exon 7
-----------------------ttttttt----tcttttcgtgttcc--ttagacatgctt-cttactatcttctgtacttgatttgcttgagt--taatattgtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
                       |||||||    | |   | || ||    ||   ||| |   ||||  || ||     ||  |||||||   |  | ||| |   || ||   ||   |      | |||||||||||||||||  | ||| | || ||||| ||  |  | |||||  | ||||| || || ||||| ||||| || ||||||||||||||||||||||
gtaggtctcccctggctgtgctctttttttggactgtagccatggtcaaagtaattatgttggtttacattcctcaagcatttttttgcttttattctgataattcgttgatgctatgattgatgtttgcagAATAATCTCCATGAGCTTTGGTCTCTCCTCAACTTCTTGTTGCCTGAAATATTTAGCTCTGCTGAAACATTTGATGAATGGTTTCAAATTTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 7
---------------------ttttttttcttttcgtgttccttagaca-tgctt---------cttactatc--ttctgtacttgatttgctt--gagttaatattgtattcatttcatatgtttctac--tacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
                     || || |    |  |||  ||    ||| || ||          | | || |  |  |||     ||| | ||  |  ||||| |  |  |  |    | || | ||||    |||||||||||||||||  | ||||| || ||||||||  | ||||||||  | ||||| || || ||||| ||||| || ||||||||||||||||| ||||
gtaggcttctgccagtattgtttgttatatagtgtgtgcacccagaacaatgattgagtaccgattcagtaaccgtgttgtgtcatattagtttttggtttaatctgattctagtccggtttgctgctacatggcagAATAATCTCCATGAGCTCTGGGCTCTCCTCAATTTCTTGCTCCCTGAAATATTTAGCTCTGCGGAAACCTTTGATGAATGGTTTCAAATTTCTGGGGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 7
ttttttttcttttcgtgttccttagacatgcttcttactatcttctgtacttgatttgcttgagttaatattg-tattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
| |  |||  |  | | ||    |  |     | ||| | | || | |   ||  |  ||  | |   || || | |  |||   | | |   |   |||||||||||| |||||| | ||| | |||||||| |||||||| || ||  |||||||||| || ||||||||||| || ||||||||||| ||||||||||
tatgcttttctagcttattttgaaatctgaactattatttttttgtttgtatgcatc-ctcaaatatttactggtgtgtattatctctttcaatggcacagAATAATCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 7
ttttttttcttttcgtgttccttagacatgcttcttactatcttctgtacttg-atttgcttgagttaatatt-gtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
  |  |||  |  | ||||    |  | |  || ||  | |  | |||   |     | ||  | |   || | || |  |||     | ||  |   ||||||||| || |||||| | ||| | |||||||| |||||||| || ||  |||||||||| || ||||||||||| || ||||||||||| ||||||||||
--tgcttttctaccttgttttgaaatcttaattattttttttgtttgtttgtatgcatcctcaaatatttactagtgtctattatcacttttattggcacagAATAACCTTCATGAACTCTGGTCTCTTCTCAACTTTCTTCTGCCCGAAATTTTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 7
-ttttttttcttttcgtgttccttagacatgcttcttac-tatcttctgtacttgatttgcttgagttaatattgt-attcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
 |    | |   ||  | | | ||  |  || | | ||  ||  |  |    || ||   ||| ||| | || ||| |||  |||| | ||       | ||||| ||||| |||||| | ||||| |||||||| |||||| | |||||  | |||||||| || ||||||||||| || ||||||||||| ||||||||||
ttgaaatctgaatttttttccttttcatttgttgcataggtaagtgataatgttaatacacttaagtaattaatgtgatttgtttcttttgac---gttgcagAACAATCTTCATGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 7
-ttttttttcttttcgtgttccttagacatgcttcttac-tatcttctgtacttgatttgcttgagttaatattgt-attcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
     | |   | |  | | ||||  |   | | | |   ||     |    || ||   ||| ||| | || ||| |||  |||| | || |   | | ||||| ||||| || ||| | ||||| |||||||| |||||| | |||||  | |||||||| || ||||||||||| || ||||||||||| ||||||||||
tgaaatctgaatcttatttccctttcattggttgcatgtgtaagcgataatgttaatacacttaagtaattaatgtgatttgtttcttttgat---attgcagAACAATCTTCACGAACTCTGGGCTCTTCTCAACTTTCTTTTGCCTGAAATATTTAGTTCTGCTGAAACTTTTGATGAATGGTTTCAAATCTCTGGTGAAA

upper sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 7
-ttttttttcttttcgtgttccttagacatgcttcttactatcttctgtacttgatttgcttgagttaatattgtattcatttcatatgtttctac-tacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
  | ||| | | | |   | |  |       ||    | ||        | |  |  || |  ||   || |   || | |   || | || |||  | ||||| ||||| |||||| | ||| | |||||||| ||||| || || ||| | |||| |||||| || |||||||| || ||||| ||||||||||| || |
actctttatatatacacatactcttatttgcctatccaataaaaataaaaatgaaaatggtgtagc--atgtgacatccttgctatcttttgctatgtgcagAACAATCTTCATGAACTATGGTCTCTTCTCAACTTTCTACTGCCCGAGATATTTAATTCAGCTGAGACTTTTGATGAATGGTTCCAAATTTCTGGAGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtacttgatttgcttgagttaatattgtattcatttcatatgtttctactacagAATAATCTCCATGAATTGTGGGCCCTTCTCAATTTTCTTCTCCCTGAGGTTTTTAGTTCAGCAGAAACTTTTGACGAGTGGTTTCAAATTTCTGGTGAAA
                 agttaat  putative branch site (score: 4)
                                           tttctact  putative PPT
                   ttaatattgtattcat  TA-rich tract