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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttaacattcaccattctcattttcttaaccaagttgcataaaacagagaaagctctgtctctgactagtgttatctttttggctgagaaaatggtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG

Basic information

species Arabidopsis thaliana
transcript AT2G18470.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G18470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os07g04520.1 (Oryza sativa), 3'ss of exon 3
gtaagttttaacattcaccattctcattttcttaaccaagttgcataaaacagagaaagctctgtctctgactagtgttatctttttggctgagaaaatggtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG
             |        |||    | || | ||  |  |||  | ||  |   ||| ||  || | ||    | ||||  ||   |       || || |||  ||||||||||||||||||| ||||||||||| ||||| |||||| |||||  |||||| ||  |  ||
------------gtaagttgaactccgaattttgatcagtt--catcgatcaatggtggctttggttcagtctgtgataatctcctttttttttttc-tgttgaagGTAATCCTCGGATCATTCACCGTGACATCAAGTCGGCAAACATTCTCCTGGACAACAACTTCGAGCCACTG

upper sequence: AT2G18470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os03g56470.1 (Oryza sativa), 3'ss of exon 2
gtaagttttaacattcaccattctcattttcttaaccaagttgcataaaacagagaaagctctgtctctgactagtgttatctttttggctgagaaaatggtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG
       | | ||  ||    ||  ||    || |    |||  | ||     |  |   |   | ||||| |  ||  ||    || ||       |   || |||||||||||||||||| |||||||||||||| || || || || ||| | |||  |||||| || || | |
------gtgagcac-cattgctccaataaatttgat---gtttaaaaatgtctacgatttttcatatctgaat--tgaaattgcatttgccattttgaccatgaagGCCATCCTCGGATCATCCACCGCGACATCAAATCCGCCAACATCCTCCTCGACAACAACTTCGAAGCAAAG

upper sequence: AT2G18470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G065214_T01 (Zea mays), 3'ss of exon 3
----gtaagttt---taaca-ttcaccattctc-attttcttaaccaagttgcataaaacagagaaagctctgtctctgactagtgttatctttttggctgagaaaatg-gtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG-----------------------------
    || ||  |   |||||  |    ||| ||  |  ||  || |  | |   | |  | ||  | |    |||     ||    |   |  | |   ||  |  |||  || ||||||||| |||||||||||||||||||||||||| || || |||||  | |||  ||||||  | || | |                             
gtgagtgagcatccgtaacagcttgaaattgtctgtcatcagaaacttggtttgtgacgc-gaccatgtcacgtcggaatcttacatccgccgtgtta-tgtcaccatgcatgaagGCCATCCCCGGATCATTCACCGCGACATCAAGTCGGCCAACATTCTTCTCGACAACAACTTCCAAGCCAAGGTCGCCGACTTCGGGCTGGCCAAGCTGAC

upper sequence: AT2G18470.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G065214_T02 (Zea mays), 3'ss of exon 3
gtaagttt---taaca-ttcaccattctc-attttcttaaccaagttgcataaaacagagaaagctctgtctctgactagtgttatctttttggctgagaaaatg-gtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG-----------------------------
|| ||  |   |||||  |    ||| ||  |  ||  || |  | |   | |  | ||  | |    |||     ||    |   |  | |   ||  |  |||  || ||||||||| |||||||||||||||||||||||||| || || |||||  | |||  ||||||  | || | |                             
gtgagcatccgtaacagcttgaaattgtctgtcatcagaaacttggtttgtgacgc-gaccatgtcacgtcggaatcttacatccgccgtgtta-tgtcaccatgcatgaagGCCATCCCCGGATCATTCACCGCGACATCAAGTCGGCCAACATTCTTCTCGACAACAACTTCCAAGCCAAGGTCGCCGACTTCGGGCTGGCCAAGCTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagaaagctctgtctctgactagtgttatctttttggctgagaaaatggtgcagGCCATCCTCGGATCATTCACCGCGACATCAAGTCTGCAAATATTCTCTTGGACTTCAACTTTGATGCTATG
              ctctgac  putative branch site (score: 3)
                          ttatcttttt  TA-rich tract