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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC

Basic information

species Arabidopsis thaliana
transcript AT1G06890.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g07310.3 (Oryza sativa), 3'ss of exon 5
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttc-catgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
                    |     |  ||||| | |    ||   |  || |   | |  |  | || ||| | |    || ||| |  | |   ||||||| ||||| || ||||| ||| | ||||||||||| || ||||||||||| |||||||| || || ||||| |||||||| || || || || || || |
--------------------gtaagcagtaaactgagttttggagacttatgttgaacgtagctgtgcttcatctgactcggttctt-tacggtatctgcagTTTTTCATTGTGCTGTCATGCTTGATATCAGTCTCAGTGAACTTCAGCACTTTTCTTGTGATCGGGAAAACCTCTCCTGTAACTTACCAAGTGCTTGGCC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
                 | |  |  ||  |||| | ||   ||  ||| |  |  |  | ||    |   ||  |||    | ||  | | | |  ||||||| |||||||||||||| ||| | ||||| || || || ||||||||||| || ||||| || ||||| ||||||||||| || || || || || || |
-----------------gtgagtagta--aaacatctttggtgcacttatcccaacagtttca---ccatattctaattttt-ctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G063511_T02 (Zea mays), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
                  | || | | | |||| | ||   ||  | | |  || |  | || |||   ||   ||| |  | ||  | | |||  ||||||| ||||| ||  |||| ||||| ||||| ||||| || ||||||||||| |||||||| |||||||| || |||||||| || || || || || || |
------------------gtgagt-tgcaaaacatctttggtgcacatatccctacagtttccatc--acactctaa-gttttctcttattttgtgtgcagTTTTTCATTGTGTTGTCATGCCTGATATCGGTCTCAGTGAACTTCAGCACTTTTCTTGTGATTGGAAAGACGTCTCCTGTTACTTACCAAGTCCTGGGCC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G081848_T03 (Zea mays), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaacttat----taactgatcttcttgcttccatgtcgatc--ctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
|| ||  |   |   || ||  |       | |||||    || |||    |  | ||| ||| ||         |   |  ||   | ||   |   ||  |||||||||||||||| ||||| ||||| || || ||||| |||||||||||||| || ||||| || || || || || ||||| || || || ||||| || |
gtaagcattgttaatccaggcttcggggggagcttatgttttagctgtcgatagtactttcatttcatctgatcacgggtctacacttactgtctc--tgcatgcagTTCTTCATCGTGCTGTCGTGCCTGATCTCGGTCTCGGTAAACTTCAGCACTTTCCTTGTGATCGGGAAGACGTCGCCTGTAACCTACCAAGTTCTCGGCC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G116053_T01 (Zea mays), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgct-tccatgtcgatcctgcatattaacgagtgcttctttgttgatt--gcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
                   | |||  ||||  |||         |    |  || || || ||| |||  |  || |  | ||     |||||||  |  |||||| |||||||| ||||| ||||| || |||||||| || ||||||||||| ||||| || || || || || |||||||| || || || || || || |
---------------gtaagcattagaccaggctttggggagtttgcgttaactgtcgatatcgctccatctgatca-tgggtctgcatttgttgcctctgcagTTTTTCATCGTGCTGTCGTGCCTGATTTCAGTCTCGGTGAACTTCAGCACTTTTCTCGTGATCGGGAAGACGTCTCCTGTAACCTACCAAGTCCTTGGCC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G39920.1 (Glycine max), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaactt--attaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
|| ||| | || |         |  | ||||  |   | | | |  | || ||  |   || | ||         ||  | | || |||||| |  ||||||| | |||||  | || || ||||| || ||  ||||||| || ||||| || || ||||| |||||||| |||||||| ||||| ||||||||||| ||||
gtaagagttaaat-------agtcttcccaagttccaacttattattattattattattattttga----atgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G14980.1 (Glycine max), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
|||||| | ||  |     |  | ||   |   |||    |  ||    ||| ||   |||  ||      ||||  ||  ||||  ||| |  | | ||| |  ||||  | || || ||| | || ||  || | || || || || ||||||||||| |||||||| ||||||||  |||| ||||||||||| ||||
gtgagatttaaaatgatttgcgtcct--tatttttaaacccaaattcctttgttt---tgttaatt-----tattttcggctgctattttctacactacagATGGTCATTATTCTTTCATGCATGATCTCTATCGCGGTGAATTTTAGTACATTTCTTGTAATTGGAAAGACATCTCCAATCACCTATCAGGTTCTTGGAC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G14970.2 (Glycine max), 3'ss of exon 6
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
|| ||| | || |        | ||| || || |    || |  | || ||  |   |   || ||           | | || |||||| |  ||||||| | |||||  | || || ||||| || ||  |||| || || ||||| || || ||||| |||||||| |||||||| ||||| ||||||||||| ||||
gtaagagttaaat--------agtcttcccaagtcccaaattattattattattattaatgcgttct----------caattgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCTATCTCGGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 7
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagt---gcttctttgttga----------ttgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
|||||  |  |  |   |   |  |    |    |  |   || | || ||  |||  |    |   |   || |    | |    || ||   |  |          |||||| ||||||| || || |||||||| ||||| || |||||||||||||| |||||||| || ||||| || ||||||||||| ||||| ||||| || ||||
gtgaggattgaaattttgataaaacattaatttcttctgtttggtttttttttttctttcctaaatttctctacttcaaaattcaactcctaaatctaatcacctcatttgcagGTCTTCATTGTTCTATCTTGCCTGATATCTGTTTCTGTAAACTTCAGTACATTTCTAGTTATTGGGAAGACATCTCCTGTAACATACCAGGTCCTGGGAC

upper sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S311_78V6.1 (Physcomitrella patens), 3'ss of exon 5
gtgagactcaatttcccggggattctaccaaacttattaact---gatcttcttgct-tccatgtcgatcctgcatattaacgagtgcttctttgttgattgc-agTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
 | ||| | ||     || |    |        || |   ||   |||   |||  | ||| ||||  || ||  |  | |     |||  |||||||  ||| ||||||||||||| || || || |||||||| || || || ||||||||||| ||||| || ||||| || |||||  | || || ||||| || || ||||
-taagagt-aacggatcgtgacaccatttgggtttttctgcttttgatgagcttattatccttgtc--tcttgtcttctcattgtggct--tttgttgggtgccagTTCTTCATCGTGCTTTCGTGTCTCATATCTGTATCAGTTAACTTCAGCACGTTTCTAGTTATTGGGAAGACATCAGCGGTGACTTATCAAGTGCTTGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC
                                     cttctttgtt  CT-rich tract
                        atattaa  TA-rich tract