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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataacatatgtcttctggtgttttcttaggtgtttcatttctgtttctcgtgttagttccacatgatctgttagttaatatggaaattgttttgtgtttatagGTGACGTCACTTGAGGATATGTACAAAAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACAGCAAACTTCAGACTGATCTTGAAACAGTTCGAG

Basic information

species Arabidopsis thaliana
transcript AT4G21270.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G21270.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 5
gtatataacatatgtcttctggtgttttcttaggtgtttcatttctgtttctcgtgttagttccacatgatctgttagttaatatggaaattgttttgtgtttatagGTGACGTCACTTGAGGATATGTACAAAAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACAGCAAACTTCAGACTGATCTTGAAACAGTTCGAG
          ||  | |        |    ||| ||    |||| ||||| |         | || || ||   |   |   | || | ||  |||    |||  |||| || |||||  | |||||||||||  |  |||||||||||||||||||||| || || || || ||||| ||||| || ||||||| ||| |     |
---------gta-atgtaacaacagtcatctagatg----atttgtgtttttatctccgaattcatataattaatgtctccctttgtatat--tttgaattttgcagGTAACCTCACTAAATGATATGTACAAGCGATTGCAAGAGTACAACACAAGTTTACAGCAGTACAATAGCAAGCTTCAAACAGATCTTGCAACGGCAAATG

upper sequence: AT4G21270.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S87_179V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatataacatatgtcttctggtgttttcttaggtgtttcatttctgtttctcgtgttagttccacatgatctgttagttaatatggaaattgttttgtgtttatagGTGACGTCACTTGAGGATATGTACAAAAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACAGCAAACTTCAGACTGATCTTGAAACAGTTCGAG
 | ||   ||| || |  ||  | |   |     ||  |  || ||| |  |  || || ||||  |  |||   || ||| |    |  |   || ||  |||  | |   ||   |  | |||||  ||||| |  | || ||||||||||| || ||||||||||||||||||||  | ||    ||       |  |     |
-tctact-catttgccagctaatatgg-caagcatgcatttttgctgctgataatgctatttcctgaacatcc--tacttacttccaacgtcacttggttatta-gGTTAGTGTT-TTGCAAGATATCAACAAACGATTACAGGAGTACAACACTAGCTTGCAACAATATAACAGCAAGTTGCAAGTGGACGCCAGTAATGCAGCCG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgttagttccacatgatctgttagttaatatggaaattgttttgtgtttatagGTGACGTCACTTGAGGATATGTACAAAAGGCTGCAAGAGTACAACACAAGTTTGCAACAATATAACAGCAAACTTCAGACTGATCTTGAAACAGTTCGAG
                        agttaat  putative branch site (score: 4)
                          ttaatatggaaatt  TA-rich tract