Sequence
atgc intronic sequence ATGC exonic sequenceCCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgcaaccatttt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G28240.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G08090.1 (Glycine max), 5'ss of exon 6
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcat-attttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgcaaccatttt-
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CTAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCGCTATTCTATATGGCTTGATGGAAAGCTTGAGCTTGTTGTTGATCCATATCAAATCCTTGAAAGgtatatctcagtattgctctttaatactatatactgattc--attttacccgtgaaagtagcatttcagtcctacatctgtacatcgtctgatatggattca
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G24770.1 (Glycine max), 5'ss of exon 6
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttc---tcagtgtaagatgaatcccaagaaa-actctagtgatatgctgtatgtagtgttcccaatattccactgcaaccatttt
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CAAAGCTTCTGTTGCATAGATTGGTTCCGAATGCTCGCTATTCTATATGGCTTGATGGGAAGCTTGAGCTTGTTGTGGATCCATATCAAATTCTTGAAAGgtatactccggtgaatctctttgatactgcatataatataccactatacatattcattctatatgctaaaggga----tgtaaatattctcatttcagtactat
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G31680.1 (Glycine max), 5'ss of exon 6
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattt-tttctcagtgtaagatgaatcccaagaaaac-tctagtgatatgctgtatgta-gtgttcccaatattc-cactgcaaccatttt
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CAAAGCTTTTGTTGCATAGATTGGTTCCGAATGCTCGCTATTCTATATGGCTTGATGGGAAGCTTGAGCTTGTTGTGGATCCATATCAAATTCTTGAAAGgtatattccggtgtatctctttgttactgcatataatattatacccctatacctattcattctatatgtgaatgtgatgtaaatattctcatttcagtcc----
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G31260.1 (Glycine max), 5'ss of exon 6
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgca-accatttt--
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CAAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCACTATTCTATATGGCTTGATGGAAAGCTTGAGCTTGTTGTTGATCCATATCAAATCCTTGAAAGgtatatttca--gtattgctctttaatacaatatactgattcattttacatgtgaaagttg-tgtagatcacatttcagtcctacatctgtacatcgtctgat
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G18630.1 (Glycine max), 5'ss of exon 4
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgca-accatttt----
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CAAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCACTATTCTATATGGCTTGATAGAAAGCTTGAGCTTCTTGTTGATCCATATCAAATCCTTGAAAGgtatatttca--gtattgctctttaatacaatatactgattcattttacat--gtgaaac-ttgtagatcatatttcagtcctacattcatacatcatttgatac
upper sequence: AT1G28240.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv00s0265g00120.t01 (Vitis vinifera), 5'ss of exon 6
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgcaaccatttt------
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CAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTGAAAGgtacaaatgagcccgtggtcatctgcccattgatatatctct------catttatgtaaaagtttgttcaagtttaacaaaatttgggtgatagaacttattatagMapped 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|124932673|gb|EL009909.1|EL009909EST: TATCAAATTCTTGAAAG ATTCTTGTGGAGGAAAAATGCTACTTTTGCTATTTCTAGACATTACAAACG
genomic: TATCAAATTCTTGAAAGgtgaggccta ... ttctcatcagATTCTTGTGGAGGAAAAATGCTACTTTTGCTATTTCTAGACATTACAAACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTGAAAGgtgaggcctatcatattttttctcagtgtaagatgaatcccaagaaaactctagtgatatgctgtatgtagtgttcccaatattccactgcaaccatttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa