Sequence
atgc intronic sequence ATGC exonic sequencegtacaaaacaatcaacctacttcattcttctaatgagcattttatatctttatctaattccagaactgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 8
gtacaaaacaatcaacctacttcattcttctaatgagcat-tttatatctttatctaattccagaa----ctgctgtgt---gcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
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-------gtaagtatttt-ctatattttcttggcatgtttgtttatttttgtatctgcttgagaaaatggttgctttctcttaaagGCCAAAGGAATGAATTGCCTCCATATTAGTGTACCAACAATTGTTCATCGGGATCTTAAATCACCAAACTTGCTGGTTGACAACAACTGGAATGTGAAG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G37330.2 (Glycine max), 3'ss of exon 9
gtacaaaacaatcaacctacttcattcttctaatgagcattttatatcttta-----tctaattccagaa--ctgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG-
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gtatgaaataattacactcattcctt--tccaaccatcattt-acgtcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAGG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 9
gtacaaaacaatcaacctacttcattcttctaatgagcattttatatcttta-----tctaattccagaa--ctgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
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gtatgaaataattacactccttccttttc--aaccatcattt-acatcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 9
gtacaaaacaatcaacctacttcattcttctaatgagcattttatatcttta-----tctaattccagaa--ctgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
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gtatgaaataattacactcattcctt--tccaaccatcattt-acgtcaataaactttcacattttgaaattctccaatttacagGCTAGGGGCATGAATTGCTTACACACCAGCACACCTACAATTGTTCATCGAGATCTAAAGTCTCCAAATCTTTTGGTTGATAAGAACTGGAATGTTAAG
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G08720.1 (Arabidopsis thaliana), 3'ss of exon 8
------gtacaaaacaatcaacctacttc-attcttctaatgagcattttat----atctttatctaattccaga--actgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
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gtagaaaaatagattcatatatcaacttccatgtcccccaggcttatttcttcagaatagtcactaaattccagactattgttactttcagGCAATGGGGATGAACTGCTTACACACCAGTACACCGACAATTGTTCATCGTGATCTCAAAACACCAAACCTTTTGGTTGATAACAACTGGAATGTTAAGMapped 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|30303225|gb|CB980019.1|CB980019EST: CTTCTTGTCAAATTGATGAGAAGCGTAGAATTAAAATGGCTCTTGATGTG GCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGG
genomic: CTTCTTGTCAAATTGATGAGAAGCGTAGAATTAAAATGGCTCTTGATGTGgtacaaaaca ... ctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcttctaatgagcattttatatctttatctaattccagaactgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
attttatatctttatc 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
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gtacaaaacaatcaacctacttcattcttctaatgagcattttatatctttatctaattccagaactgctgtgtgcagGCAAAGGGTATGAATTGTTTGCACACCAGTTTACCAACAATTGTTCACCGGGATTTGAAGTCACCAAATCTGCTGGTTGATAAGAACTGGAATGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC