Sequence
atgc intronic sequence ATGC exonic sequencegtattggagtaaatgaaattttttattcttgttccttcatatattacttatgctccttgcatgaattacattccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g04070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G063899_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------gtattggagtaaatgaaattttttatt-cttgttccttcatatattacttat-gctccttgcatgaa--ttac----attccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
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gtaaaatctatttacagaccttttgtgcttgattttatcttgatcgtgctaaactgtaattttgattccatgtacgatgttttctattgtttgcttatcactctttttgtcatcaatcctaagatgaaagtgacgagaaatcaagcaatttttttgtcttaatactttttattttaaacatactatgaatagGTTAAAGCAAGCACTAAAGGCTGGATTCAGGCATCTCATATTTGAGGACAACTATGATACTGGTACAGGTGACCATTATTCCTTGAGGCAGATCTGTGAT
upper sequence: Vv09s0002g04070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G02050.1 (Glycine max), 3'ss of exon 2
gtattggagtaaatgaaattttttattcttg--ttccttcatatattacttatgctccttgcatgaattacattccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
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------------gtgacttactagatctttgagatgcaagattcaatagttgagtgcttctgatgaa--acagttattcattattacta-tttattattttatatat----gtcaaaatgagcagAATTGAACAAGCTTTGAAAGCTGGGTTCCGACATCTTGTCTTTGAGGATAACTATGACACTGGAACTGGTGATCATTATTCATTAAGGCAGATATGTGAT
upper sequence: Vv09s0002g04070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G43300.1 (Glycine max), 3'ss of exon 2
gtattggagtaaatgaaattttttattcttgttccttcatatattacttatgctccttgcatgaattacattccagtataattgctaattcatgat-ttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
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-----------------gtgattta--ctagatctttgagatgcaaggttcaatagttgagtgcttctgatgaaacagttattgattattactattattattttatatatgtcaaaatgagcagAATTGAACAAGCTTTGAAAGCTGGGTTCCGACATCTTGTCTTTGAGGATAACTATGACACTGGAACTGGTGATCATTATTCATTAAGGCAGATATGTGAT
upper sequence: Vv09s0002g04070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G16200.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattggagtaaatgaaattttttattcttgttccttcatatattacttatgctccttgcatgaattacattccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
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----------------------------gtagtttttcatttctcatctct-ttcccggtattg--tatgtgctaa-gcattcactgatt--ttattttacatattt----tcaaacgagcagGCTAAAGCAGGCACTGAAAGCTGGTTTCCGACATCTCATTTTCGAGGATAACTACGATACAGGAACCGGGGATCACTATTCGCTGAGACAGATATGTGATMapped 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|110395387|gb|EC961050.1|EC961050EST: CTCAGTCGGGTTCTTATCTTTTTTGATGACCATCAAAATGAATTAAAAAG AATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAA
genomic: CTCAGTCGGGTTCTTATCTTTTTTGATGACCATCAAAATGAATTAAAAAGgtattggagt ... tgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
taattcatgatttttc TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattggagtaaatgaaattttttattcttgttccttcatatattacttatgctccttgcatgaattacattccagtataattgctaattcatgatttttcatattcatgctttgatgggcagAATAAAGCAGGCTCTGAAAGCTGGATTCCAGCATCTGATTTTTGAGGATAACTATGATACCGGAACTGGAGACCATTATTCCTTGAGGCAAATTTGTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA