Sequence
atgc intronic sequence ATGC exonic sequenceTGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtataccagtaaagtaaaaaaagcatcagttttacacttttcttaaactgcaatgcccaattctgatttcacttaatatccatttcttgatattag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G46070.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G46070.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G03670.1 (Glycine max), 5'ss of exon 4
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtataccagtaaagtaaaaaa--agcatcagttt-tacacttttcttaa-actg-caatgcccaattctgatttcacttaatatccatttcttgatattag
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TGATATATGGTCTGTTGGTTGCATACTTGGTGAAATCATAACAAGACAACCGCTCTTTCCTGGCAAAGATTATGTTCATCAGCTGAGACTTATCACAGAGgtattagcttgattccaaactcctgaattagctagcataattatattaagactgattatgttcttgtttgtttgtatttcttttctctcttttagaactg-
upper sequence: AT2G46070.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G07270.1 (Glycine max), 5'ss of exon 4
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtat-accagtaaagtaaaaaaagcatcagttttacacttttcttaaactgcaa-tgcccaattctgatttcacttaatatccatttcttgatattag--
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TGATATATGGTCTGTTGGTTGCATACTTGGTGAAATCATAACCAGACAACCACTCTTTCCTGGCAAAGATTATGTTCATCAGCTGAGACTTATCACAGAGgtattattagcttgatttcaaactcctgaattagctagcataattatattaagactgattatgttcttgtttgtttgtatttcttttctctcttttagaa
upper sequence: AT2G46070.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G39190.1 (Glycine max), 5'ss of exon 4
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtat--accagt-aaagtaaaaaaagcatcagttttacactt--ttcttaaactgcaa---tgcccaattctgatttcacttaatatccatttcttgatattag
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TGATATTTGGTCTGTTGGTTGCATCCTTGGTGAAATCATAACAAGACAACCCCTATTTCTGGGGAAAGATTATGTTCATCAGCTCAGGCTGATTACGGAGgtattagctagtcagagatcctgaatgataccttttacatctggttcctgaattgcaagcatgctttctt-taattcttctttttatagattag--aatgttg-
upper sequence: AT2G46070.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA18G47140.1 (Glycine max), 5'ss of exon 4
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtat--accagt--aaagtaaaaaaagcatcagttttacactt--ttcttaaactgcaatgcccaattctgatttcacttaatatccatttcttgatattag---
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-GATATATGGTCTGTGGGTTGCATCCTTGGTGAAATCATAACAAGACAACCCCTATTTCCGGGGAAAGATTATGTTCATCAGCTCAGGCTGATTACAGAGGtattagctagttggaaatcctgaatg-atactttttacatctggttcctgaattgcaaacattctttc--atttatttttatttttattttatag-atcagaat
upper sequence: AT2G46070.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv15s0046g02010.t01 (Vitis vinifera), 5'ss of exon 4
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtatacc--agtaaagt------aaaaaaagcatcagttttacacttttcttaaactg--caatgcccaattctgatttcact--taatatccatttcttgatattag
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TGATATTTGGTCAGTGGGTTGTATCCTTGGAGAAATCATGACAAGGCAACCTCTGTTTCCTGGCAGAGATTATGTCCATCAGCTGAGACTTATCACAGAGgtatgctttatggaaaccttttgagttaaacctactgtctgacattttttttcaattgaatactgtagaacacctttgctgctggtgttatccattacca--------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|86080215|gb|DR375972.1|DR375972EST: CGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAG CTTGTAGGCTCTCCAGACAATTCCAGCCTCGGCTTCCTTCGCAGTGACAAC
genomic: CGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtataccagt ... ttgatattagCTTGTAGGCTCTCCAGACAATTCCAGCCTCGGCTTCCTTCGCAGTGACAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATATTTGGTCTGTTGGCTGCATACTCGGCGAAATCATGACGGGACAACCGTTGTTTCCAGGCAAAGATTATGTTCATCAGCTTAGGCTTATAACAGAGgtataccagtaaagtaaaaaaagcatcagttttacacttttcttaaactgcaatgcccaattctgatttcacttaatatccatttcttgatattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT