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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG

Basic information

species Arabidopsis thaliana
transcript AT3G11130.1
intron # 17
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 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 17
gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttg-tgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
        ||| |  ||| ||   |  | ||||  || |   | | |||| ||| ||  |||   |   |  | || |  | || ||||||||||| |||| ||||| |||||||| ||||| || ||||| || ||||| ||||||||||||
-------gtcagtaccttttt--gttgttttggtttactt--ttttttttctttgcctgtctgtttaattaacattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 17
gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttg-tgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
        ||| |  ||| ||   |  | ||||  || |   | | |||| ||| ||  |||   |   |  | || |  | || ||||||||||| |||| ||||| |||||||| ||||| || ||||| || ||||| ||||||||||||
-------gtcagtaccttttt--gttgttttggtttact---ttttttttctttgcctgtctgtttaattaacattatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 15
gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
        ||  |  | | |  | | || | |  || ||   |    |||  | ||     |||     | || | ||   |  |||||||||| |||||||| ||||||||||| ||||| ||||| || || ||||| |||||||| |||
-------gtcggtaacctttgcattgttttgg--ctgatctcttctctttaatctctgtgttaaaccaatatcgtattttctgatgcagCATTATTCAGAGTTGCCTGATATCAAGCGTGTCATTGTAAATACTCATGCCATTGAGCCCCAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 5
---------gtttttgctcaatgtc--ttctttaatattcttg-gcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
         |      ||| | |||  | | ||   |||  ||   || |||  |    ||  | ||||  | |||||    || | |||   |  ||||||||||||||||||| ||||||||||| ||||  ||||| || || ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtacctttgcattggtgcagctgatatctccgcttcgtattcctgtttaactaaccttacattt-tgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G352837_T01 (Zea mays), 3'ss of exon 4
---------gtttttgctcaatgtc--ttctttaatattcttg-gcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
         |      ||| | |||  | | ||   |||  ||   || |||  |    ||  | ||||  | |||||    || | |||   |  ||||||||||||||||||| ||||||||||| ||||  ||||| || || ||||  ||||| ||||||
gttgtacttgcgagccctccaggtcagtaccttcgcattggtgcagctgatatctccgcttcgtattcctgtttaactaaccttacattt-tgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGCGTGCCATTGTAAATACCCATGTCATTGAACCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GRMZM2G477336_T01 (Zea mays), 3'ss of exon 3
---------gtttttgctcaatgtc--ttctttaatattcttg-gcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG-------------------------------------
         |      ||| | |||  | | ||   |||  ||   || |||  |    ||  | ||||  | |||||    || | |||   |  ||||||||||||||||||| |||||||||||  |||  ||||| || || ||||  ||||| ||||||                                     
gttgtacttgcgagccctccaggtcagtaccttcgcattggtgcagctgatatctccgcttcgtattcctgtttaactaaccttacattt-tgtaatgcagCATTACTCAGAGTTGCCTGATATCAAGTGTGCCATTGTAAATACCCATGTCATTGAACCACAGGTTTGTCGACTTCAGTTATTTTCAGATATCTTTTTTA

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 16
gtttttgctca--atgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaac-ttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
||  |  ||||  |  | |  |||| | ||  |||  |  |   |  |         |  ||||    ||  || | || |  || |||||||||||| ||||||| || ||||| |||||||||||||| || |||||||| ||||||||||||
gtaatgactcaccaaatgtgttttattcttactggttttcttatttaacccaaaggccttctcttttattgattacattatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTAATTGTAAATACACATGCAATTGAGCCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 16
gtttttgctca--atgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaac-ttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
||  |  ||||  |  | |  |||| ||||  |||  |  |   |  |         |  ||||     |  || |  | |  || |||||||||||| ||||||| || ||||| |||||||| ||||| || |||||||| ||||||||||||
gtaatgactcaccaaatgtgttttattattactggttttcttatttaacccaaaagccttctcttttactgattacactatttttggtgcagCATTACACAGAGTTGCCAGATATAAAACGTGTGATTGTAAATACACATGCAATTGAGCCACAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 17
----gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
    |   |  |  ||||| || | |  |     |  |   ||    || ||    |    ||  |   ||  || | || | ||| |||||||||||| |||| ||||| || ||||||||||| ||||| ||  ||||||| ||||| || |||
gtaaggactctccaaatgtgttttattctcgcactttctctatgttagtcttaaagtcaaaccctttg-ttgattgcattattcttggtgcagCATTACACAGAATTACCAGACATCAAACGTGTGATTGTTAATTCACATGCAATTGAACCTCAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 17
----gtttttgctcaatgtcttctttaatattcttggcctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
    |   |  |  ||||| || | |  |     |  |   ||     | ||    |    ||  ||| ||  || | || | ||| |||||||||||| |||| ||||| || |||||||| || ||||| || |||||||| ||||| || |||
gtaaggactctccaaatgtgttttattcttgcactttctctatgttaatcttaaaatcaaacccttaa-ttgattgcattattcttggtgcagCATTACACAGAATTACCAGACATCAAACGCGTGATTGTTAATACACATGCAATTGAACCTCAG

upper sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 17
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 17
---------gtttttgctcaatgtcttctttaatattct--tggcctaatagatgtatt---tttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
         ||| ||||      | || ||| || || |       | || | |  ||    ||  ||   | |||   ||      ||| |  ||||||||||||||  | ||||| || ||||| ||||| || |||||||| |||||||| ||||||||||||
gtgaaattggttcttgcaattcattttattttattttttaccttttttattgttacatgaaattaattatacgtcttggttaaaacacttatattttgtgcagCATTATACTGAGTTGCCAGATATAAAACGCGTCATTGTGAATACACATGCAATTGAGCCACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaatagatgtatttttttttcccctctaacttcgtttccttttgctttgtgcagCATTACTCAGAGTTACCTGATATCAAACGTGTAATTGTGAACACACATGCTATTGAGCCACAG
                        ctctaac  putative branch site (score: 2)
          tatttttttttcccct  CT-rich tract
     agatgtattttttttt  TA-rich tract