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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgaactgcctttgtttaaatgcttttttttttcttgtttactgtatgtgtacttattcctccttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG

Basic information

species Arabidopsis thaliana
transcript AT4G19110.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 6
--gtattgaactgcctttgtttaaatgcttttttttttcttgtttactgtatgtgtacttattcctccttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
   | ||  ||   |  |||||   |    ||   | |  ||||   |  |     | || ||  |  | ||   |   | |  | ||   || | ||||||||||| |||||||||||| | || || || ||||| |||||||||||  |||||||  |  | || ||||||
gtattttagaccagcgatgtttttttatcattccctgttatgttctttcaactgacatttcttgttattattttgttgaagTCTTTGC---GGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCCGAGAAAATGATATATTATACTTCATAATGGAATACATG

upper sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G178822_T01 (Zea mays), 3'ss of exon 7
--gtattgaactgcctttgtttaaatgcttttttttttcttgtttactgtatgtgtacttattcctcct-tttccctcctatt--agTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
   | ||  ||      ||||    |  || |  || |||  |||  | | |  |    |||| ||  | ||    |  ||||  ||||  |  || | ||||||||||| |||||||||||| | || || || ||| |||||||||||||  |||||||  |  | || ||||||
gtattttagaccagtggtgttc---tttttatcattctctgttttgttctttcagctgatatttcttttattgttattttattgaagTCTTTGCGGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCAGGGAAAATGATATATTATACTTCATAATGGAATACATG

upper sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S479_13V6.1 (Physcomitrella patens), 3'ss of exon 3
-------------------------------------------------------------------gtattgaactgcctt---tgtttaaat-gcttttttttttcttgtttactgtatgtgtacttattcctc--cttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
                                                                   ||||  || |  |     |||| ||   ||||||   ||| |||  |  || |||   | |  ||  ||  |   |      | | |||| || ||||   ||||||||||||| ||||||||||||||||| || ||| | ||||| |||   ||||  ||||| || |||||||||
gtatgttatccttagttcgagtgcgaactggtctttgagaaggcgtccgtgcggttttcaccgtttagtatgtaagtctcaacgatgttcaaccagcttttggattttttgaattttgcatgccgattatttgatcggcgaatgtggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATG

upper sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S28_184V6.2 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------gtattgaactgcctttgtt---taaatgcttttttttttcttgtttactgta-tgtgtacttat-tcctccttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
                                        ||    | |     | ||   | | | ||| ||         | |  | || |  ||||| |  |  |   | | | |  |   |||| ||  |||   |||||||||| |||||||||||||||||||| || ||  | || ||||||    |||  ||||| || |||||||||
gtgggaccatcctggatagaatacaatttgattgcagaaatagctcatttttactattcgatgagtacttcttaacgatgaatcttttctaataagtactgaaatggtgtatgtgcttgattacagTCTCTGCGGAAGCTGAATCATCCCAACATTGTGAAGTTGAAGGAGGTTATAAGAGAGAATGATGAGTTATTTTTTGTGTTCGAGTACATG

upper sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S34_221V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------------------------------------------gtattgaactgcctttgtttaaatgcttttttttttcttgt-ttactgtatgtgtactt-attcctccttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
                                                               | ||  |  | |||      |  || |  ||| |   | ||  |  |  ||| | | |     |  ||    |  |   |||| ||  | |   |||| || || ||||||||||||||||||||||| ||||| ||||| |||   || |  ||||| || ||||| |||
gtaaagatttgccattttcgtttgcatataggtcatcgagaatttctatgcggaaggtcttcgtcgagatatccttgacattttatttatcctttacaaatcttgattgagatgtgcctcaaaaaacagttgtggttttgacagTCTCTGCGAAAGTTGAAGCACCCCAACATTGTGAAGTTGAAGGAAGTCATCCGAGAAAACGATGAACTTTTTTTTGTTTTCGAGTATATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttcttgtttactgtatgtgtacttattcctccttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG
                        tgtacttattcctcct  CT-rich tract
                          tacttatt  TA-rich tract