Sequence
atgc intronic sequence ATGC exonic sequenceGGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactagaatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52150.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G01950.1 (Glycine max), 5'ss of exon 2
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATA---CTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatc-ttaataatcacta----gaatgttt--tctttaa---gaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag---------------------------
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---TATGAACAAGCTGCTGATGGAAGAGAATGATAGGTTGCAGAAGCAGGTGTCTCAACTCGTCTATGAAAATGGCTATTTTCGTCAACACACCACCCAAAATgtaagaat-ctactact-ctgtttttttattgggtttgtaattaatgatgcccaatccaaatattcaatcttttatttgtatagttttggtaaattgttcttctacgctttcatagatttttctatgtgaaaattatagaatggcgctttctctgcag
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G01940.1 (Glycine max), 5'ss of exon 2
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactagaatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
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TGCTATGAACAAGCTGCTGATGGAAGAGAATGATAGGTTGCAGAAGCAGGTGTCTCAACTCGTCTATGAAAATGGCTATTTTCGTCAACACACCCAGATTgtaagaattttgtt--tgtaat-tcttgttacactgttttttattggattttgtaattttgttattaatgatgcccaa---tttgaaagactccaaatttgaatct---------------
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G21620.2 (Glycine max), 5'ss of exon 2
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCC---AAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactag-aatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
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---CATGAACAAGCTGCTCATGGAGGAGATTGATAGGTTGCAGAAGCAGGTCTCTCAACTCGTCTATGAAAATGGCTATTTTCGTCAACATACCACCCAAAATgtaacaat-ctactact---------ctgtttttatagattttgtaattattaatgatgcccaatccaaatatt----caatcttttgtttgtgtatattacaatgttttactt--------
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G21610.1 (Glycine max), 5'ss of exon 3
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactagaatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
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TGCCATGAACAAGTTGCTCATGGAGGAGAATGATAGGTTGCAGAAGCAGGTCTCTCAACTCGTCTATGAAAATGGCTATTTTCGTCAACACACCCAGATTgtaagatttttgtttgt------tattggattttgtaattttgttattaatgag---gcccaatttaaaag-------atccca-----aatttgaatatttatttctgtagttttagcaa
upper sequence: AT1G52150.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g03740.t01 (Vitis vinifera), 5'ss of exon 2
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactagaatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
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CGCCATGAACAAGCTTTTGATGGAGGAGAATGATAGGTTGCAGAAGCAGGTGTCTCAACTGGTGTATGAGAATGGCTACTTCCGCCAACATACCCAGAACgtgagaa-----ctccttatatgctttctcgtctccagcc---atattgtctctgatgatttttttccgttttct--ttttctttttttt-taaaggttctgattcttctg----------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|86068368|gb|DR364125.1|DR364125EST: TGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCCAAT CCTTCACTTCCAGCTAAAGACACAAGCTGTGAATCGGTGGTGACGAGTGGT
genomic: TGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattc ... tttttttcagCCTTCACTCCCAGCTAAAGACACAAGCTGTGAATCGGTGGTGACGAGTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCAATGAACAAGCTCTTGATGGAGGAGAATGACAGGTTGCAGAAGCAAGTGTCACAGCTGGTCCATGAAAACAGCTACTTCCGTCAACATACTCCAAATgtgaggattctactcctgcaatatcttcatttttcttatcttaataatcactagaatgttttctttaagaataataatatccttttaatggtatgtgtatcgatttgtctttttttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG