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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGAGAAACTCTAACTCAATTAGGGAGTTTCTGGAGAAAAACTACAAAGAAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgctctatcatgttctataactaaaccttgtagttttcttttgagctattgtcggggtgccctgttagtgaatgttctataactaaacctagt...

Basic information

species Arabidopsis thaliana
transcript AT3G51260.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G51260.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv04s0023g03690.t01 (Vitis vinifera), 5'ss of exon 2
TGGGAGAAACTCTAACTCAATTAGGGAGTTTCTGGAGAAAAACTACAAAGAAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgctctatcatgttctataactaaaccttgtagttttcttttgagctattgtcggggtgccctgttagtgaatgttctataactaaacctagt---
||||||||||||||| || || |||||||| |||||||| ||||| |||||||   | || ||||||||||| |||||||| || |||||  ||||||| || |||    | |  | || | | |   | |   |  ||  |   |  |  | |          | || ||||  |  ||  |||    |||    ||     
TGGGAGAAACTCTAATTCGATGAGGGAGTTCCTGGAGAAGAACTATAAAGAAACTTCCGGGCAAGAAACTGTGAAGCTTGCAATTCGTGCATTGCTTGAAgtgagtggctttttgcctgctttgtttgtta-tttcatatgtacatagtttgttgcacataatctcccttgtt--tttattctctgaggctagtggtataggt
















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|164060712|gb|ES049273.1|ES049273
EST:     CGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAG                         GTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGACACGAGAG
genomic: CGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgc ... cattttgcagGTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGACACGAGAG
EST: gi|163986658|gb|ES205300.1|ES205300
EST:     AAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAG                         GTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGAC
genomic: AAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgc ... cattttgcagGTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGAC
EST: gi|164065239|gb|ES148851.1|ES148851
EST:     AAGCGCTGGCCAAGAAACTGTTAAGTCTTGCTATCCGTGCTCTGCTTGAG                         GTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGAC
genomic: AAGCGCTGGCCAAGAAACTGTTAAG-CTTGCTATCCGTGCTCTGCTTGAGgttagtttgc ... cattttgcagGTTGTTGAGAGTGGGGGAAAGAACATTGAGGTTGCTGTAATGAC
EST: gi|164139683|gb|ES200270.1|ES200270
EST:     AAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAG                         GTTGTTGAGAGTGGGGGGAAAGAACATTGAGGTTGCTGTAATGAC
genomic: AAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgc ... cattttgcagGTTGTTGAGAGTGGGGG-AAAGAACATTGAGGTTGCTGTAATGAC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGAGAAACTCTAACTCAATTAGGGAGTTTCTGGAGAAAAACTACAAAGAAAGCGCTGGCCAAGAAACTGTTAAGCTTGCTATCCGTGCTCTGCTTGAGgttagtttgctctatcatgttctataactaaaccttgtagttttcttttgagctattgtcggggtgccctgttagtgaatgttctataactaaacctagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA