Sequence
atgc intronic sequence ATGC exonic sequence...ctgtacccactgcccagatgggttttggttttgtcagtacccatccaacaagtgatgtagttcttttttaggtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os01g14810.3 (Oryza sativa), 3'ss of exon 13
ctgtacccactgcccag-atgggttttggtttt--gtcagtacccat--ccaacaagtgatgtagttcttttttaggtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
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----atctatcatgtagtaactatcttaatcttaagccaaaaataaagatagtttggtgatttagtttattttctactgaagtatcaattgtt-ttcttttccagACGCTTGCTGCTACTTGTATGGATGATCAGGAGCTTACAGAAAGTATGCAAAAGTTGCTCATTGTTATGCAGAGATTAGATGAAAAAATTGCACCAATGC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA17G04580.1 (Glycine max), 3'ss of exon 13
---ctgtacccactgcccagatgggttttggttttgtcagtacccatccaacaagtgatgtagttcttttttaggtgatttatggccttttgctatttttca---gACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
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tttttattataattttttgaagttatccagataagactattatatatt-----attggcgtattgctttagtac-tgattgaaagattttctgtgttcttaaaaagACCCTAGCAGCAACTAATCTGGATGATGAAGACCTCACTGATAGCATGCAAAAGCTACTTATTGTTATGCAAAGACTGGATGAGAAAATTGCTCCAATGC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 13
ctgtacccactgcccagatgggttttggttttgtcagtacccatccaacaagtgatgtagttcttttttaggt---gatttatggccttttgctatttttc--agACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
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----actttttatt-atattttttttaagttacccagataagactatatacattattggcctattgcttcagtactgattgtaagattttccatgttcttaaaagACCCTAGCAGCAACTAACTTGAATGATGAAGACCTCACTGATAGCATGCAAAAGCTACTTATTGTTATGCAAAGACTGGATGAGAAAATTGCTCCAATGC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 12
ctgtacccactgcccagatgggttttggttt-tgtcagtacccatccaacaa--gtga-tgtagttcttttttag--gtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
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-----tgcattgggtt-acatgttttattcaatatgaataattattcaagaatggcaactacatgtctttgttaatattgatattttgaattttgtgtattggaagATTGTTGCTGCAACTAATGTGAACAAAGAAAATCTTACTGAACGCATGCAAAAGTTACTTCTTGTTATGCAAATACTAGATGGAAAAATTGCTCCAATGC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 13
------------------------------ctgtacccactgcccagatgggttttggt-tttgtcagtacccatccaacaagtgatgta-----gttcttttttaggtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
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gtttgtttatctccttacaagctctagagtctatcttctctccctgtgtggaacacaatgtgtatgaacagataaatagatagagatttgtgacggaaattgcttataaagatatccgtttctcttttccttctagACTCTCGCTGCTACCAACTTGGATGATCAAGAACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCMapped 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|352773983|gb|FQ473115.1|FQ473115EST: ACCAACTTCGACTTGCTTTGCAAAGGCGAACCAAGGGGCGGCCTGCTCAA ACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAG
genomic: ACCAACTTCGACTTGCTTTGCAAAGGCGAACCAAGGGGCGGCCTGCTCAAgtaagtttta ... tatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAG
EST:
gi|352772409|gb|FQ469934.1|FQ469934EST: ACCAACTTCGACTTGCTTTGCAAAGGCGAACCAAGGGGCGGCCTGCTCAA ACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAG
genomic: ACCAACTTCGACTTGCTTTGCAAAGGCGAACCAAGGGGCGGCCTGCTCAAgtaagtttta ... tatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caacaagtgatgtagttcttttttaggtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
ccttttgctatttttc CT-rich tract
ttctttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtacccactgcccagatgggttttggttttgtcagtacccatccaacaagtgatgtagttcttttttaggtgatttatggccttttgctatttttcagACTCTTGCTGCAACTAATATGGATAATCAAGGACTCACTGAGACCATGCAGAAGCTACTTCTTGTTATGCAAAGATTAGACGAAAAAATTGCACCAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - -cactgcc
- - - - - - - cagatgg
- - - - - - - - - - - - - - - - - - - - ccatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatggcc