Sequence
atgc intronic sequence ATGC exonic sequenceTTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtggatttttatgcgttaattaccttgttaaataaagagtctctgcaaaatgcaaaaagtgcgcacccaatgttatattaagccagtctctctctctctctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G06390.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G06390.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G472625_T02 (Zea mays), 5'ss of exon 7
TTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtggatttttatg--cgttaatt--accttgttaaataaagagtctctgcaaaatgcaaaaagtgcgcacccaatgttatattaagccagtctctctctctctctacag
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TTATCGTGCTCCAGAGCTCATATTTGGAGCGACGGAGTATACAACTTCAATAGACATATGGTCAGCTGGCTGTGTTCTAGCTGAGTTGCTTCTTGGTCAGgttggt-tgcattcatataatgattaacctaatatttttgtacctcga-tttgaccaaatcatgtatggtgtgattctaacctcttggggtcttggatcttatgtatcag-----
upper sequence: AT1G06390.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G15470.2 (Glycine max), 5'ss of exon 7
TTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttag-----tgtggatttttatgcgttaattaccttgttaaataaagagtctctgcaaaatgcaaaaagtgcgcacccaatgttatattaagccagtctctctctctctctacag
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CTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttataaatttctggaaatctatgcattaatgttgttgatacttaagatttttttgctttctttctgggatatgtt----atattgacttcacgtagtttctaa-tgtttgtatag
upper sequence: AT1G06390.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G36570.1 (Glycine max), 5'ss of exon 6
TTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtggattt-------ttatgcgttaattaccttgttaaataaagagtctctgca-aaatgcaaaaagtgcgcacccaatgttatattaagccagtctctctctctctctacag
|||||||| |||||||| || ||||| || ||||| || ||| | || | ||||| ||||| ||||||||||| || ||||| |||||||| ||||||||| | ||| ||||| |||| || || |||| || | | | | || || | | || || | | ||| | |
CTATCGTGCCCCAGAACTAATATTTGGTGCAACAGAATACACAACTTCTGTTGATATTTGGTCAGCTGGTTGTGTCCTTGCAGAACTTCTTCTAGGCCAGgttgttaaaattttaggcaacctatgcactaatgttgttcatacataatatgtttttctttgtttatgagaaatgttatcttggcttctcatagtttcaaaatatttctttatag----
upper sequence: AT1G06390.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 5'ss of exon 7
TTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtggatttttatgcgttaattaccttgttaa-ataaagagtctctgcaaaatgcaaa--aagtgcgcacccaatgttatattaagccagtctctctctctctctacag--------------
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CTACCGGGCCCCAGAACTTATATTTGGTGCAACTGAATACACAACATCGATTGATATTTGGTCAGCTGGTTGTGTTTTTGCTGAGCTTCTACTAGGCCAGgttagtg---gctgtgagaaatttat-attttgttgttaccaagaattttcccagtgttttttttaagttcattatttgcttagttgtatatcatttgcttactttcacaattgcaaatgtttggcagMapped 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|125279537|gb|EL293622.1|EL293622EST: TCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAG CCGTTATTTCCAGGAGAAAATTCAGTTGAATCAGCTTGTGGAGATCATAAA
genomic: TCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtgg ... ctctctacagCCGTTATTTCCAGGAGAAAATTCAGTTGA-TCAGCTTGTGGAGATCATAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATATGGTCTGCTGGTTGTGTACTGGCAGAGCTTCTTCTGGGCCAGgttagtgtggatttttatgcgttaattaccttgttaaataaagagtctctgcaaaatgcaaaaagtgcgcacccaatgttatattaagccagtctctctctctctctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT