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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG

Basic information

species Arabidopsis thaliana
transcript AT2G19880.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 4
gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
                               ||  |    |    ||| | |   ||      |||||     |  ||  |   |||||  || | |||  |  || |     |  |||  |  ||    |   |   |||||  |  | || || ||||| || || |||||  | ||||||||||||||||||||||| ||||||||||| 
-------------------------------gtaagcagaaaacctta-caagtaataacta-atagtgttattctccaacacctgtctgtaactctct-ttatctgttgtaataaccttgttagttcatatgattttcagGACAAGTTGGAGGCAAAGGTGGTTGTAGCTGGGCTCTCAACAACATGTAGCCAGAAAATCCATAATCAGTTA

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 4
gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtaca---cagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
                                                         | ||||  | | | |       | |   |||   |  |   || |   ||| ||| |    |||  | | ||  || || |   |||||  || | || || ||||| || |||||||| || |||||||| ||||||||||||||||| ||||| |||
---------------------------------------------------------gtaagtggattgcctcgtaaggtttacagtcacaatattgttaat--ttcttcatctactgtaacat-tatttgatataaatttcagGACAATCTGGAGGCAAAGGTGGTCGTTGCTGGGTTGTCAACAACCTGTAGCCAGAAAATTCACAATCAATTG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 4
---------------------------------gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttat-ctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
                                 ||   |||  |||           || ||    |    | |||||   |  |   | | |  || |  |   |  ||| || |    |  ||   | |  ||    |  ||| |     | ||   | ||   || |  ||||||||||||||||||||||| || || |||||||| |||||||| ||||| || |||||||| ||||| |||
gtataaataagttcacaagttatttgatataaagttttgcaaccataaactccttagtcctttcaattagttgatttgccctgttggagctagttgttttctgttttgggctttatccattagtgttatttgcacctcattcacactaaatttgatgcctgtttggtgcatgcagGATCATGTTGAAGCTAAGGTTGTTGTAGCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 3
gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
                        |     |||  | | || ||||| ||| |   | |   | ||  | |||    | ||| | | ||          | | || ||| ||||      ||   | ||  |||||  ||||||||||||||||||||||| || ||  ||||||| |||||||| ||||| || |||||||| ||||| |||
------------------------ttgccctgtcggagctagttgttttctctt--ttgggctttatccaatagtatcatctgt-gcctc---------attcacactaaattt-----gatgcctgtttgatgtatgcagGATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTG

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 3
gtacagcagacatgtttcaacatatcattgtgttcgtgttatttgttatctatcgatggaagtatagtccatatggccttcttttgtcttgaagtatctactgactctacatttttccta-atctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
|||||   || ||   |||   ||  |||   |||   |  |||| |  || |  |      ||| |   |   |   |   | | |  |||   ||  |     ||| ||| || | || || | | || |||| |  ||||||  |||| |||||| | |  |  | ||||||||||||||||| ||||| || |||||||| ||||| |||
gtacatgtgaaat---tcatattaagatttgattctattgttttggtgcctttgcaatactctattgcagaacagttttcggtcttttctgacaaattgatattttctgcatcttacttagatgtctgtttaatgcatgcagGATTCTGTTAAAGCTAGGATTATAATAGCTGGTTTATCAACAACTTGTAGTCAAAAAATTCACAATCAATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgaagtatctactgactctacatttttcctaatctgtcttcaatgtacacagGATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG
                     tacattttt  TA-rich tract