Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccgtcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02290.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g41140.1 (Oryza sativa), 5'ss of exon 4
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccgtcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga---------
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TGAGAATCCTAGGATAGTAATGCAGTGCTCACATCATTTCCACCTTGGCTGTATTTATGAGTGGATGGAAAGAAGTGAAGCATGCCCTGTTTGTGGAAAGgtaattttgctttagctcttccttttttttcc----tccttataa--tttttgtccagttatatgctt---tgttgactatgtttgctttttctaggtactacgtacaa
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G468260_T04 (Zea mays), 5'ss of exon 1
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgc--attcttagaacgaagtgcgtataaaactcccgt-caaagcaaaaggccatatgcttttcgaa-attgcacggtctagatga
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TGAGAATCCTAGGATAGTAATGCAGTGCTCACACCATTTCCACCTTGGCTGTATTTATGAGTGGATGGAAAGAAGTGAGGCATGCCCTGTCTGTGGAAAGgtaatttgtttatctctttgcttacccttataatttattattgctgtcacacatatgtgaagcccgacacaaaatttatgtcacctgttctacgatgaag----
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G04340.1 (Glycine max), 5'ss of exon 4
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccgtcaaagcaaaa--ggccatatgcttttcgaaattgcacggtctagatga-
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AGAGAATCCAAAGATAATGACAAAATGCTCTCATCATTTTCACCTTGGTTGCATTTATGAGTGGATGGAGAGAAGTGACAACTGTCCAGTTTGTGGAAAGgtaatacttagtattttctaaggattttttttt---tttttacttcattagcaatgaagcagaaatggacaggaatatatcaaattttgttctgagaagtgaa
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G06840.1 (Glycine max), 5'ss of exon 3
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccgtcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga----
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AGAGAATCCAAAGATAATGACAAAATGCTCTCATCATTTTCACCTTGGTTGCATTTATGAGTGGATGGAGAGAAGTGACAACTGTCCTGTCTGTGGAAAGgtactacatagtattttctaaatacttaggaaaacgttttttttagttt---atttatttaaaatatttgaagatgattcaa-ttgcaacactgtaataaaata
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G27730.1 (Glycine max), 5'ss of exon 4
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaac---cactttttttttctgcattcttag--aacgaagtgcgtataaaactcccgtcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga
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AGAGAATCCGAAGATAGTGACAAAATGCTCTCATCATTTTCATCTTGGTTGCATTTATGAGTGGATGGAAAGAAGTGACAGCTGTCCTGTTTGTGGGAAGgtaatatttacttggtattttcgaattatttctcactgaaatg---accaagttc--aacagaaattagtgcatagaacacatcaaagcagtaggatgagaacct
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G50950.1 (Glycine max), 5'ss of exon 4
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccg---tcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga---
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-GAGAATCCGAAGATAGTGACAAAATGCTCTCATCATTTTCATCTTTGTTGTATTTATGAGTGGATGGAAAGAAGTGACAACTGTCCCGTTTGTGGGAAGGtaa-----tattttcttggtattttctgaattatttctcactgaaatgactaagttcatcagaatttgatgcatgttctacataaacgaggtaggaagactggct
upper sequence: AT3G02290.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv14s0083g01000.t01 (Vitis vinifera), 5'ss of exon 4
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaa-gtgcgtataaaactcccgtcaa--agcaaaaggccatatgcttttcgaaattgcacggtctagatga
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AGAAAATCCCAAGATAATGACAAAATGCTCTCACCATTTTCACCTTGGTTGTATATATGAATGGATGGAGAGAAGTGAAACATGTCCAGTCTGTGGCAAGgta-tcgtttttcatttctgtcatgtgaagttgcttgtttactttgtcatagcattgattaggcataggtcacat-cttcaatacactgcttcatataaaat-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|86085496|gb|DR381255.1|DR381255EST: GCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAG GTGATGGAATTCAACGAAACACCGTGATCATCGACCATTGATCCGTGTCCT
genomic: GCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactt ... atgtatgcagGTGATGGAATTCAACGAAACACCGTGATCATCGACCATTGATCCGTGTCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAACCCAAAGATTGTGACAAAATGTTCACACCATTTCCACCTTAGTTGCATTTATGAGTGGATGGAGAGAAGTGAAAACTGTCCAGTCTGCGGAAAGgtaaccactttttttttctgcattcttagaacgaagtgcgtataaaactcccgtcaaagcaaaaggccatatgcttttcgaaattgcacggtctagatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT