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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactatattactactaacccgggatttttcttttcttttcgcggttgtcttatcggacatcttggttaatgaatgatacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA

Basic information

species Arabidopsis thaliana
transcript AT3G27560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27560.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 5
gtaactatattactactaacccgggatttttcttttcttttcgcggttgtc--ttatcggacatcttggttaatgaatgatacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA
     | | ||||| |    |    |||| ||  |    |||    |||||  |  | |   ||| ||   |||  ||   |||| | ||||| || || || || ||||| ||||| ||||| || || |||||||||||||| | ||| |||||||| ||||| || ||||||||  ||| ||
--gtttctgttactgcagttc--atatttgtcaatataattcttttttgtcaatatttgctaatcctga--aatatatc-cacagTTGTACAGCACAGTGACATTGAGGCATGGAGAAAAGAAGCATTACAATCATAAAGTAGACGTTTATAGCTTTGCAATTGTGTTATGGGAACTCCTTCACA

upper sequence: AT3G27560.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtaactatattactactaacccgggatttttcttttctt--ttcgcggttgtct-tatcggacatcttggttaatgaatg-atacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA
         || |||||    |   ||||||  |||||   | |    || ||| |||     || |    |    | |  | |||| | ||||| || || ||  | ||||| ||||| ||||| || || || || ||||||||||  ||||||||||| ||||| |||||||||||  | | ||
--------gtttctactgcatccatatttttagtttctgagtccttaattttctgtattattaatgtaacctgggaattctaaacagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA

upper sequence: AT3G27560.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0066g00370.t01 (Vitis vinifera), 3'ss of exon 4
----gtaac-tatattactactaacccgggatttttcttttctt-ttcgcggttgtcttatcggac------atcttggttaatgaa---------tgatacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA
     ||||   || | ||  ||       |||  | | || || || | |  ||    |  ||||      ||  ||   | | |          || |  |||| || || || || || || ||||| ||||||||||| || || ||||| || || ||||| ||||||||||| |||||  ||||||||||  |||  |
gtacttaacacttaatgcttttatttattcattcatttatttttgttggtgaatggggaaggggactccagaatgctgaccattcacctttcactttgttgtagCTTTATAGCACAGTAACATTGAGGCATGGAGAGAAGAAGCATTACAATCACAAGGTGGATGCCTACAGCTTTGCTATTGTACTGTGGGAACTCGTTCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcttttcttttcgcggttgtcttatcggacatcttggttaatgaatgatacagCTCTACAGTACGGTTACGTTAAGGCAAGGAGAGAAGAAACACTATAATCATAAAGTAGATGCTTACAGCTTTGCCATTGTCTTGTGGGAACTTATTCTCA
                                     ggttaat  putative branch site (score: 4)
                                       ttaatgaat  TA-rich tract