Sequence
atgc intronic sequence ATGC exonic sequenceACTGAGAAAATAGAGCTGGAAGCTACCGTCGTTGATGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAAGACGATTTAGTGgtgagttacattacattgcttgcaactgcatgtttgtgcatcctttatgtgtatattagctcactaattttaattatatatggaacgattggaggtctgagtgattgtaatttcttccttactcagttgagacagttttaacatcattgttctcctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G13170.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G13170.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G37650.1 (Glycine max), 5'ss of exon 3
ACTGAGAAAATAGAGCTGGAAGCTACCGTCGTTGATGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAA---GACGATTTAGTGgtgagttacattacattgcttgcaactgcatgtttgtgcatcctttatgtgtatattagctcactaattttaattatatatggaacgattggaggtctgagtgattgtaatttcttccttactcagttgagacagttttaacatcattgttctcctacag
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ACAGAGAAAATAGAGTTGGAAACTACTGTAGTGGATGAAACAAAGGAACGTGAATCATACTGTGGACAAGGAAATAGAAGGTTTAGTGgtgagtatta--atgtccattgt-----catgtcttttg--ccttgaattacctttaaaatctgtacttgcaaaggaagtcaatatgaatgccattttggattgttgtg---------------------------------------------------
upper sequence: AT1G13170.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G01590.1 (Glycine max), 5'ss of exon 3
ACTGAGAAAATAGAGCTGGAAGCTACCGTCGTTGATGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAA---GACGATTTAGTGgtgagttacattacattgcttgcaactgcatgtttgtgcatcctttatgtgtatattagctcactaattttaattatatatggaacgattggaggtctgagtgattgtaatttcttccttactcagttgagacagttttaacatcattgttctcctacag
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ACAGAGAAAATAGAGTTGGAAACTACTGTAGTGGATGAAACAAAGGAACGTGAATCATACTGTGGACAAGGAAATAGAAGGTTTAGTGgtgagt---atta-attgtccattgtcatgtcttt-tgc---cttgaattaccattaaaatctgtacctgcaaaggaagtcaatatgaattccgttttagattgtcgt----------------------------------------------------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|164039330|gb|ES067277.1|ES067277EST: TGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAAGACGATTTAGTG ATTTCTATTCAG
genomic: TGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAAGACGATTTAGTGgtgagttaca ... tctcctacagATTTCTATTCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGAGAAAATAGAGCTGGAAGCTACCGTCGTTGATGAAACAAAGGAGCATGACTCTTGCTGTGGACAGGGAAGACGATTTAGTGgtgagttacattacattgcttgcaactgcatgtttgtgcatcctttatgtgtatattagctcactaattttaattatatatggaacgattggaggtctgagtgattgtaatttcttccttactcagttgagacagttttaacatcattgttctcctacag
- - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA