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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacggtatttttgtcttggtttactcggctttgtttcaattgggtatacactgtattataatgcagtcttctcatgttttgggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG

Basic information

species Arabidopsis thaliana
transcript AT5G55280.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G02110.1 (Glycine max), 3'ss of exon 5
gtacggtatttttgtcttggtttactcggctttgtttcaattgggtatacactgtattataatgcagtcttctcatgtttt------gggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG
 | | |||||   | |||    |    ||   | |    | |||||  || |     | |  | |    ||  | |||  |      | |    ||||  |||| ||||| |||||||| || || || || || || ||||||||||||||||| |||||||||||||| || |||||||| || || ||||| || || |
-tgctgtattcc-gccttttgctgtatggtggtatacttactgggttcactcctaccttttcttcgtatttgccttgtccttaacacgtgtaatttttatagGTGGTGACTAGTTTGGCTGATCCTTCTGCTAATATTATATTTGGAGCTGTTGTTGATGATCGCTACACTGGGGAGATTCACGTGACTATAATTGCAACTG

upper sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G10030.1 (Glycine max), 3'ss of exon 6
-------gtacggtatttttgtcttggtttactcggctttgtttcaat----tgggtatacactgtattataatgcagtcttctcatgttttgggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG-
       | |   |||| |      |      || || || |||  ||    ||  | |    || |   |  |    | || |||    ||       |  || |||| ||||||||||| || ||||| || ||||| || |||||||| || ||||| |||||||||||||  || ||||||||||| || || || || || | 
tacttaagaattttattgtcagaaggaacatttcagcattcttttgatcttatgaatttgttgtgaacatttgtatcctgttttcaaaacttcataac-tgctgtaggTGGTGACAAGTTTAGCCGACCCTTCTGCCAATATTATATTTGGTGCCGTTGTTGATGATCGCTACAATGGGGAGATTCATGTGACTATCATTGCAACTGG

upper sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G46530.1 (Glycine max), 3'ss of exon 5
--gtacggtatttt-tgtcttggtttactcggctttgtttcaattgggta-tacactgtattataatgcagtcttctcatgttttgggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG
  || | |||||||   | ||| | ||       ||   |   |||  |  |||  | | ||   ||      |   | |     | |    ||||  |||| ||||| |||||||| || || || || || || |||||||| ||||| || |||||||||||||| || |||||||| || || || || || || |
ttgtgctgtattttgccttttgctgtatggtatatttactgggttgactcctaccttttcttcgtatttgccttgtccttaacacgtgtaatttttatagGTTGTGACTAGTTTGGCTGATCCTTCTGCTAATATTATATTTGGGGCTGTCGTTGATGATCGCTACACGGGGGAGATTCACGTGACTATCATTGCAACTG

upper sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G43500.1 (Glycine max), 3'ss of exon 6
---gtacggtattt--ttgtcttggtttactcggctttgtttcaattgggtatac-actgtattataatgcagtcttctcatgttttgggggggtt-------ttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG
      ||| ||||  ||| |       ||    |  | ||    |||    ||  | | | ||  ||  || |  | || ||||||       |        ||| |||| ||||| ||||| || ||||| || ||||| || |||||||| || ||||| || ||||||||||  || ||||||||||| || || || || || |
gtacctcggaattttattggcagaaagaacatttcagtattctttttgatcttatgaatttgttgcaa-acatttgtatcctgttttcaaaacttcataactgttgtagGTTGTGACTAGTTTAGCCGACCCTTCTGCCAATATTATATTTGGCGCCGTTGTTGACGATCGCTACAATGGGGAGATTCATGTGACTATCATTGCAACTG

upper sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 5
---gtacggtatttttgtcttggtttactcggctttgtttcaat-tgggtatacactgtattataatgcagtcttctcatgttt-tgggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG
   ||  | | |||||| |     | | | |   ||||     | ||||  |    | | ||  | |    | | || || |||         |  | ||||| || |||||| |||| || || || || ||||| |||||||||||||||||||| || |||||||  || ||||||||||| || ||||| || || |
atagtg-gctttttttggcacctatcatttgaaattgtccttttgtggggttgtgttttcttgcattttcttatgctaatatttgcatatccatgattcagGTTGTTACAAGTCTGGCCGATCCTTCAGCTAACATAATATTTGGAGCTGTTGTGGACGACCGCTACAATGGGGAGATTCATGTGACTATAATTGCAACCG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86039265|gb|DR335020.1|DR335020
EST:     TCACTGGTGGAAAAGACATAACTTTGCAGGAAGTGAACCGAGTATCACAG                         GTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTT
genomic: TCACTGGTGGAAAAGACATAACTTTGCAGGAAGTGAACCGAGTATCACAGgtacggtatt ... ggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggtatacactgtattataatgcagtcttctcatgttttgggggggttttgcagGTCGTGACAAGTTTGGCAGACCCATCGGCCAACATCATATTTGGAGCTGTTGTGGATGATCGCTACACCGGAGAGATTCATGTAACGATAATCGCCACAG
           tgtattataat  TA-rich tract