Sequence
atgc intronic sequence ATGC exonic sequencegtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 20
gtaattgt-tgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
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gtacatgtacatcctgtttgctgttatgaactcc----ccattgtagtaa-atcatttttcaaagctaaacctcatctatgtattatacagCAATCGTATACCTGAAGCTGCGTTAATGGCACGTTCTTATCTTCCCAGCAAAGTTTCTGAGATAGTAGCAATATGGAGAAATGACCTCAGTAAA
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os06g05180.4 (Oryza sativa), 3'ss of exon 4
gtaattgt-tgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG------
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gtacatgtacatcctgtttgctgttatgaactcc----ccattgtagtaa-atcatttttcaaagctaaacctcatctatgtattatacagCAATCGTATACCTGAAGCTGCGTTAATGGCACGTTCTTATCTTCCCAGCAAAGTTTCTGAGATAGTAGCAATATGGAGAAATGACCTCAGTAAAGTAATT
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 9
-----------------------gtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttg--ggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
| ||| || | |||||| | | | | || | | | || | ||| | | | |||| |||| || || || ||||||||||||| || ||||||||||| ||||| || || ||||| ||||||||||||||||||||||| || | ||||| ||||| || | ||||
gtattattttaccgttgtgatattttattaatgatattactgtacaaagagaaagggggggggggggggggtgattagaatgcagtttgatgtagctgagttatgcttttggcagCAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAAGGTCTCAGAGATAGTGGCAATTTGGAGAAAAGATCTCAGTAAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 20
-----------------------gtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
| ||| || | |||| | | | | | | ||| |||| ||| || | || |||| |||| || || || ||||||||||||| || ||||||||||| ||||| || || ||||| ||||||||||||||||||||||| || | ||||| ||||| || | ||||
gtattattctactgttgtgatcttttattaatgacatcactgtacagagagagaaagagagggttgattaga-atgcagttt----gatgtagctgagttatgcttttggcagCAATCGGATTCCAGAGGCTGCTTTAATGGCTCGATCCTATCTCCCAAGCAAGGTCTCAGAGATAGTGGCAATTTGGAGAAAAGATCTCAGTAAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA13G43680.1 (Glycine max), 3'ss of exon 20
----------gtaatt--gttgttgttactgcaaacatggg-aacaaagatagttgtggagatattc------cacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
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gtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacatttatagctgaagtatgccttttgcagCAATCGAATTCCAGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAAGGTCTCAGAGATAGTGGCAATTTGGAGAAAAGACCTCAATAAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 20
gtaattgtt----gttgt--tactgcaaacatgggaacaaagatagttgtggagatattc---cacttttgggatgata-ctgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
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gtaatcttctaaagttgtgctcttccctttatgacattactgatagggaaggattgattagaatgcagttacatttatagttgaagtatgccttttgcagCAATCGAATTCCGGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAAGGTCTCAGAGATAGTGGCAATTTGGAGAAAAGACCTCAATAAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 3'ss of exon 20
gtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatat-tccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
| || | |||||| || ||| || | | | || | || | || | || | ||| |||| ||| || ||||| || || |||||| |||||||||| ||||||||||||||||| || || |||||||| ||||| |||||| |||| || | |||
----gtatt-tcattactgttcacttggccgtttggaaaaat-caaatatgtgtcttttgttatctttatgacaagaaattatcttgacagTAACCGGATACCAGAAGCTGCTCTGATGGCACGTTCTTATCTTCCAAGCAAAGTTTCGGAGATAGTAGCTCTATGGAGGGAAGATCTCAGCAAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgg--gatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
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gtaatt-----cattagtagtcacttgagagtttggaaaatca---aatttatgcacctttggttaactgtgtgacaatattttttcctcagTAACCGGATACCAGAAGCTGCTCTGATGGCACGATCATATCTTCCGAGCAAAGTTTCTGAGATAGTAGCTCTTTGGAGGAAAGATCTCAGCAAGMapped 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|110728301|gb|EE103751.1|EE103751EST: TTGTTCATGTTGGGTAAATTGGAAGAGTGTCTGCAGCTGTTGGTGGACAG CAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAA
genomic: TTGTTCATGTTGGGTAAATTGGAAGAGTGTCTGCAGCTGTTGGTGGACAGgtaattgttg ... ctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
cattctcttt CT-rich tract
agatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgttgttgttactgcaaacatgggaacaaagatagttgtggagatattccacttttgggatgatactgaagcattctctttgcagCAATCGGATCCCTGAGGCTGCTTTGATGGCACGGTCTTATCTTCCAAGCAAGGTCTCAGAGATAGTCGCTCTGTGGAGGAAAGACCTTAATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA