Sequence
atgc intronic sequence ATGC exonic sequence...accggtgatctctcttgccctctggtagacgtgaggtgtcagctgtgctgctatcatgctaaaaatatatgggcaattgatagcacttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g38710.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------------accggtgatctctcttgccctctggtagacgtgaggtgtcagctgtgctgctatcatgctaaaaatatatgggcaattgatagcacttt--tatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
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gtaaaatatagcatctgtccgttgaatgtgttacctaccattttcatctttagtgatttaatcatatcttcactagaactgata-gtaatttttaattctatattgttggta-tgtatataaacttggttatcccttggcaactttgcagGATGGGAAGGTATTGCCTAATGGACCTGTTGTGATTTCACCTGATGGTTTATTTCCGTCATTGTACCGGGAAG
upper sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G099481_T01 (Zea mays), 3'ss of exon 6
--------------------------------------------------------------------------accggtgatctctcttgccctctggtagacgtgaggtgtcagctgtgc--tgctatcatgctaaaaatatatgg---gcaattgatagca-cttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
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gtaaaataataattgtcatttgatgtcatcttctagcacatgcttttctcatcttcactgatttaggcatttgtgtgggtatggcacagtggtctttatttaattttacatggtattttcaatatgtttgcaggctaaatttattcagtttataattgatgtcctctcccaactttgcagGATGGGAAAGCACTACCCAATGGGCCTGTTGTAATTTCACCTGATGGCTTGTTTCCTTCACTCTACCGAGAAG
upper sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G05320.1 (Glycine max), 3'ss of exon 6
accggtgatctctcttgccctctggtagacgtgaggtgtcagctgtgctgctatc-atgctaaaaatat-atg-ggcaattgatagcac-ttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
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---tttgtattatgttttctttttattgtcctgaaatat-aattgcatcattgttgacaatgaagggatcatgtaataatactttaaacattgcgtgcttgcagGATGGAAAAACCTTACCAAATGGACCTGTTGTTATATCACCTGATGGATTATTTCCCTCGCTTTACCGAGAAG
upper sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G35930.1 (Glycine max), 3'ss of exon 8
accggtgatctctcttgccctctggta-gacgtgaggtgtcagctgtgctgctatcatgctaaaaata----tatgggcaattgatagcacttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
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-----ttttttcaatttcttttttttatgtccttgcatcttgacaactcagttatcattgtaaaaataccactttaggagatactaaaagttcatatatttgcagGATGGCAAGACCTTACCGAATGGACCTGTTGTTATTTCACCTGATGGATTATTTCCCTCTCTTTACCGAGAAG
upper sequence: Vv08s0040g02800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G19730.1 (Glycine max), 3'ss of exon 6
accggtgatctctcttgccctctggtagacgtga---ggtgtcagctgtgctgctatcatgctaaaaatatatgggcaattgatagcacttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
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tatatttgttttgtttgtcctgaaatagaattgcatcgttcttgacaatgaagggatcatg-taataatactttagctac--ataaacattgcgtgcttgcagGATGGAAAAACCTTACCAAATGGACCTGTGGTTATCTCACCTGATGGATTATTTCCCTCACTTTACCGTGAAGMapped 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|110427773|gb|EC994224.1|EC994224EST: CAATTGTTCAGGCATATCTAACTAGAAGTTTTCTACTCAATCTCAAACAG GATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTA
genomic: CAATTGTTCAGGCATATCTAACTAGAAGTTTTCTACTCAATCTCAAACAGgtgttctttt ... atgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgctatcatgctaaaaatatatgggcaattgatagcacttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
cttttat CT-rich tract
atgctaaaaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
accggtgatctctcttgccctctggtagacgtgaggtgtcagctgtgctgctatcatgctaaaaatatatgggcaattgatagcacttttatgtttgcagGATGGAAAAGCTTTACCTAATGGGCCTATTGTTATTTCACCTGATGGGTTATTTCCTTCATTATACCGAGAAG
- - - - - - -cttgccc
- - - - - - - - - - -ctggtag
- - - - - - - - - - - - - - - - - - - tcagctg
- - - - - - - - - - - - - - - - - - - - - - -tgctgct
- - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata