Sequence
atgc intronic sequence ATGC exonic sequenceCCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttgatcctgcacaaaatcttttatctgattctgatctatcttccattcaaatgccaagtccaaatacacacgtcttgatatctttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64560.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G159295_T01 (Zea mays), 5'ss of exon 6
CCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttgatcctgcacaaaatcttttatctgat---tctgatctatcttccattcaaatgccaagtccaaatacacacgtct-tgatatctttacag
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CCCAACTATTGGTTCAAAAATATCAAGAGCAAGCAGAGCCAGTGCAGCTACTGTGCATGGAAATGAGAATGATGTTGAAGAGCTAGAGATGTTGCTGGAGgtttgt--attttgt------ttctttacctgacggacataacctatcagttgtc--attgtcttggttgagtatttaaagctattataa-tctgcag
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA20G35260.2 (Glycine max), 5'ss of exon 6
CCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttg-atcctgcacaaaatcttttatctgattctgatctatcttccatt-caaatgccaagtccaaatacacacgtcttgatatctttacag
||| || ||||| || ||||| || |||||||||||||| |||||||| ||||||| | ||||| |||||||| ||||| |||||||||||||| |||||| | || | | | || | ||||| || || | || | ||| | ||| | ||| |||
CCCCACCATAGGATCAAAGATATCTAGAGCAAGTAGAGCAAGTTTAGCAACAGTTCGTTTAGATGAAAATGATGTGGAAGAGCTTGAAATGTTACTTGAGgttattaacattatttgctttaaagaatagaaggaaaagatcttcatttttttatgaggaaaaaattgctataaatggtgtttgttcattttgcag
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G32350.1 (Glycine max), 5'ss of exon 6
CCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtt---tgttgatcctgcacaaaatcttttatctgattctgatctatcttccattcaaatgccaagtccaaatacacacgtcttgatatctttacag
| | | | |||| | |||||| |||||||| ||||||| | || || |||||||| ||||| ||||||||||||||||||||| | ||| ||| | | | | || | || | | | || | | || | ||| | ||| |||
TGCTGCCTCTCCTACCATAGGATCAAAGATATCTAGAGCAAGTTTAGCAACAGTTCGTTTAGAAGAAAATGATGTGGAAGAGCTTGAAATGTTACTCGAGgttataaactttatttgctttaaaaatagaaggaaagcatcttcatttttttaatgaggaaaaaatgcta--taaaaggtctttgttcattttgcag
upper sequence: AT5G64560.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv05s0020g04720.t01 (Vitis vinifera), 5'ss of exon 6
CCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttgatcctgcacaaaatcttttatctgattctgatctatcttccattcaaatgccaagtccaaatacacacgtcttgatatctttacag
||| || || ||||| || || || || | |||||||| ||| | || ||||||| ||| ||||||||||| ||||| || |||||||||||||| |||||| || | || | || | || | || | ||| | || | | | | | || || || | |||
CCCCACTATTGGCTCAAAAATCTCCAGGGTGAGTAGAGCAAGTGTGGCTACAGTTCGTGGAGATGAGAATGACGTTGAGGAGCTTGAAATGTTACTTGAGgttataacattcatatcag----tcttgtttg-tcatgttttattgacagttaagaagttatcatctaaagtgtgtagtgaaatgtcat-gcagMapped 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|86083384|gb|DR379143.1|DR379143EST: CAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAG GCATACTTCATGCAGATCGACAGCACTTTGAACAGATTAACAACC
genomic: CAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttgat ... atctttacagGCATACTTCATGCAGATCGACAGCACTTTGAACAGATTAACAACA
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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCAACAATAGGCTCTAAGATTTCAAGAGCAAGTAGAGCGAGTTTAGCCACAGTTCATGGGGATGAGAATGATGTTGAAGAACTTGAAATGTTACTCGAGgtttgttgatcctgcacaaaatcttttatctgattctgatctatcttccattcaaatgccaagtccaaatacacacgtcttgatatctttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC