Sequence
atgc intronic sequence ATGC exonic sequence...ccaccatccatatgtgtgtgtgcatgtatgtttgtatgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g57220.1 (Oryza sativa), 3'ss of exon 7
ccaccatccatatgtgtgtgtgcatgtatgtttgt-atgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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----------gttgtgaatatacttgtgtttttgttatttctgcacactatttcttcttata----tttgacatagtgtattgttacaatgtatgttgcagGACTGAGAGTGCTTTGAAGTTTGGATGGTTTTTCCTGTTTTACTTG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g38590.1 (Oryza sativa), 3'ss of exon 8
-----------------------------ccaccatccatatgtgt--gtgtgcatgtatgtttgtatgtgtgtt-tatggttttacctgacaattttctgttatctgatca--cactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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gtaaatgaaatattactacttgtcacacattataatttgcattttttgggatcattttttgtgaggttttctgttgtttagttcgaactaatatctccttggctcataatttatttctgcaaaacgtatcacagGAATGAGAGTGCTCTGAAATTTGGATGGTTTTTCCTGTTCTACTTG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G169773_T02 (Zea mays), 3'ss of exon 7
ccaccatccatatgtgtgtgtgcatgtatgtttgtatgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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--gttgtgtgtatgtttctgc-tgtgtctattcatgcacattgccaca-ttgtaccctcctccatttcacattatgtttat--ttaaatgtgtattacagGACTGAAAGTGCTTTGAAGTTTGGGTGGTTTTTCTTGTTTTACCTT
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G25460.1 (Glycine max), 3'ss of exon 7
----ccaccatccatatgtgtgtgtgcatgtatgtttgtatgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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acctctggtactca-attaatatata-atatttatttttgctgagcaaaaaaaaaaaatttggtcttactgttgatcttgaatatgctgt--tcttttttgcagGAATGAAAGTGCTTTGAAATTTGGATGGTTTTTCATGTTTTATCTG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G31090.1 (Glycine max), 3'ss of exon 8
---ccaccatccatatgtgtg-tgtgcatgtatgtttgtatgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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attgaagcattcatgagaacaataggcaaatatgcatgcatattt--tcatctttttattttgccttactgttgatcttgaatatgctgc--tctttttttcagGAATGAAAGTGCTTTGAAATTTGGATGGTTTTTCCTGTTTTATCTG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 9
ccaccatccatatgtgtgtgtgcat-gtatgtttgtatgtgt-gtttatggttttacctgacaattttctgttatctgatcacactacaacat--ttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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--ttcaatcctgcacaatcaaacaaagtgtgcttgcatattttgatcat--tctaatttggttacacccttgattttgaatttgttccattgttatttttgcagGACTGACAGTGCTTTGAATTTTGGATGGTTTTTCTTGTTTTACCTG
upper sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G07480.1 (Glycine max), 3'ss of exon 8
ccaccatccatatgtgtgtgtgcatgtatgtttgtatgtgtgtttatggtt-ttacctgacaattttctgttatctgatcacactacaacattt--cttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
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--ttcaatcctgcgcaatcaaacaaa-atgtgcttgcatattttgatcattgtaatttggttacactcttgattttgaatttgttccattgttatatttgtagGACTGACAGTGCTTTGAATTTTGGATGGTTTTTCTTGTTTTACCTGMapped 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|110694691|gb|EE072020.1|EE072020EST: GTCCCAGGAGCTTATGTGTTGTGGTACCGTCCACTTTATCGTGCTTTTAG GAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
genomic: GTCCCAGGAGCTTATGTGTTGTGGTACCGTCCACTTTATCGTGCTTTTAGgtatttcctt ... tttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
catttctt CT-rich tract
acaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaccatccatatgtgtgtgtgcatgtatgtttgtatgtgtgtttatggttttacctgacaattttctgttatctgatcacactacaacatttcttacagGAATGAAAGTGCTTTGAAGTTTGGATGGTTTTTCATGTTTTATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- -ccatcca
- - - - - - -gtgtgtg
- - - - - - - - - - -gcatgta
- - - - - - - - - - - - - - - - -gtatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - cctgaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcacac