Sequence
atgc intronic sequence ATGC exonic sequenceAGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21160.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G130889_T02 (Zea mays), 5'ss of exon 3
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatgg--ttagctacaatgctgacagcttatgttaacgttcaccattg--ttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGATCCTGTCAATAATGAAAGACGGGAAAAAGTTAAAGAGGCAATGCTCCATGCTTGGAATTCTTATGTTAAGTATGCCTGGGGAATGGACGAGCTTCAGgttt-gtttagtcggtactctgtattaattctgat-ctg-catctggttttacatttcctaactgattctagatctaaactgccttctgtcatttgctttgctcgcgttgattcccag----------------------------------------------------------
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G128914_T02 (Zea mays), 5'ss of exon 3
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgta-tggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGATCATGTCAATAATGAAAGGCGGGAAAAAGTTAAAGAGGCAATGCTCCATGCTTGGAATTCTTATGTGAAGTACGCCTGGGGAATGGATGAGCTTCAGgtttgtttagtcggtagtaattctgatctgcagttgtttttgcatttcttaac--tgattctaaatttaaaatgtcttctgtcttttgctttgttcacct-----caattcccag----------------------------------------------------------
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G23730.1 (Glycine max), 5'ss of exon 3
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgtt-aacgttcaccattgttcagagaataattgggttgtt-taactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGATCCCATTGATATCGAGAGGAGGGAAAAAGTAAAAGAAGCAATGCTTCATGCTTGGGGATCTTATGAGAAGTATGCATGGGGACAAGATGAACTTCAGgtatggtga-atctctataatga-acccatcaacctttcactttttatttaatggtagtttttataggtattttcctttgtgggttctgtatgtctaaagtt------------------------------------------------------------------------
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA07G02290.1 (Glycine max), 5'ss of exon 2
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGATCCGATTGATATCGAGAGGAGGGAAAAAGTAAAAGAAGCAATGCTTCATGCTTGGGGATCTTATGAGAAGTATGCATGGGGCCAAGATGAACTTCAGgtatggtga-atctctat---------tatgaacccatcaacctat---------caccactttttatttaatgatagtttttataggtattttccattgtgggttctgtatgtctaaa-----------------------------------------------------
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv11s0052g00140.t01 (Vitis vinifera), 5'ss of exon 3
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGATCCCACTAACTTTCGGCGGAGAGAACAAGTAAAAGATGCTATGATTCATGCATGGAGTTCCTATGAAAAGTACGCATGGGGCCAAGATGAACTTCAGgtttgctattcttaata-acatacacctgccatgctg-----taatttaaacaatt----ttgtccataaaa-aatgcagccacctg--cagcagtagtaa--atttcttcaaat---------------------------------------------------------
upper sequence: AT3G21160.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv09s0054g00370.t01 (Vitis vinifera), 5'ss of exon 3
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
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TGACCCCATAGACATTCAGCGAAGAGAGAAAGTAAAAGATGCTATGCTTCATGCATGGAGTTCATATGAGAAGTATGCGTGGGGACAAGATGAACTTCAGgt-----ttcattgatgtgttttttatttttagttttttgatttgttt---cgttttgtattgtcttcttcttcttcttcttcttcttctactactactactactact----------------------------------------------------------------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|86064596|gb|DR360353.1|DR360353EST: ATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAG CCCCAGACAAAGGATGGTGTT
genomic: ATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagtttt ... gcattatcagCCCCAGACAAAGGATGGTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATCCAGTTGATGCTCAGCGAATGCAGAGAGTTAAAGAGGCAATGGTTCATGCTTGGAGTTCATATGAAAAGTATGCCTGGGGACAAGATGAGCTTCAGgtacagttttatctttgtatggttagctacaatgctgacagcttatgttaacgttcaccattgttcagagaataattgggttgtttaactagttaaaatgagaacactttctacttgcgataaatatatttctgtgaagctatttgtgtaacttttttttttgcattatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT