Sequence
atgc intronic sequence ATGC exonic sequenceGGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgcatttcttctgatcctagttgctttcaggcacctgtgttgcttcacaagtcttatcaacaatgggcttttcggattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G12980.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 5'ss of exon 10
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaa-gccgcatttcttctgatcctagttgctttcaggcac-ctgtgttgcttcacaagtcttatcaacaatg-----ggcttttcggattgcag----------------------------------------------------------------
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TGTTTATTTGTCATACCTGGATTCTGTTAAATACTTCAGGCCTGAGATTAGAACGGTGTCTGGAGAGGCGTTACGTACATTTGTTTATCATGAAATTCTGgtaatgttctatgtttgctgagtttttctaaatttaaatgcgttgttttgccaggctggtcatactatttttgtatgcaactctttgggggggattctgccttcctccttaggctagcgtttttctgcactatctaatgctaggtctctatgtgttcag
upper sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G470556_T01 (Zea mays), 5'ss of exon 9
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgc-atttcttctga-tcctagttgctttcaggcacctgtgttgcttcac-aagtcttatcaacaatgggcttttcggat-tgcag-----------------------------------------------------------------------
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TGTTTATTTGTCATACTTGGATTCTGTTAAGTACTTTAGACCTGAGATTAAAACAGTATCCGGAGAGGCCTTGCGTACATATGTATACCATGAAATTCTGgtaatttaccatccatgctgactttttgttgctagta--caaatttattgccttaccaggttttgatcaaaactgtctacgagaccatacaacaggaaaccttttttcttcttctttttagctagcatttgttctgggtctaatctgccctcaccgtgtacag
upper sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G139977_T01 (Zea mays), 5'ss of exon 9
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgc-atttcttctgatcctagttgctttcaggcacctgtgttgcttcacaagtcttatcaacaatgggcttttcggattgcag----------------------------------------------------------------
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TGTTTATTTGTCATACTTGGATTCTGTTAAGTACTTCAGACCTGAGATTAAAACAGTATCTGGAGAAGCCTTGCGTACATTTGTGTATCATGAAATTCTGgtaatttgccatccatgctgactttttgtgacta-atacaaatttattgccttaccaggtttggccaaaactgtttggggggaccatatgactggaaactgttttttttagctaggatttgttcttggtctaatctgttctcattgtgtacag
upper sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA15G00250.1 (Glycine max), 5'ss of exon 10
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgcatttct----tctgatcctagttgctttcaggcacctgtgttgcttcacaagtcttatcaacaatgggcttttcggattgcag--------------------------------------------------------------------
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GGTTTATCTTTCATATCTGGACTCTGTAAAGTATTTTAGGCCTGAGGTTAAAGCAGTAACTGGAGAAGCTCTTCGGACATTTGTTTATCATGAAATTCTGgtaacctttagttctaattccttgtccttgtgttgggtggaatattatacagccttgtggaaccctttgttg--gagtcattcaagttctgatttgtttccttcctgtagttctattctatataaatagttgagtagttttcgttatgattttcttttag
upper sequence: AT3G12980.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 5'ss of exon 9
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgcatttcttc--tgatcct--agttgctttcag---gcacctgtgttgcttcacaagtcttatcaacaatgggcttttcggattgcag------------------
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TGTTTATCTCTCATATCTGGATTCTGTGAAGTACTTCAGGCCTGAGATTAAATCAGTGACTGGGGAGGCTCTCCGTACATTTGTTTACCATGAAATTCTGgtgagttttagtattacgccaatcttttatttattcttgatgagcaattcttatggtttggaatcttttt--atattgggctatt-ggcttatatatccgattctctttccagMapped 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|125185570|gb|EL200524.1|EL200524EST: TATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTG ATTGGTTACCTTGACTACTGTAAGAAACGTGGATTTTCAAAGCTGCTATAT
genomic: TATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgca ... cggattgcagATTGGTTACCTTGACTACTGTAAGAAACGTGGATTTTCAA-GCTGCTATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTTTACCTTTCCTATCTGGACTCAGTTAAGTACTTCAGACCTGACGTTAGAACAGTATCTGGAGAGGCCCTCCGTACGTTCGTATACCATGAAATTCTGgtaagccgcatttcttctgatcctagttgctttcaggcacctgtgttgcttcacaagtcttatcaacaatgggcttttcggattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG