Sequence
atgc intronic sequence ATGC exonic sequence...ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os02g50550.1 (Oryza sativa), 3'ss of exon 18
---ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
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ctcatatcaacctgttccactttcccacggccatgattat--tttttgaatgtgtcaaacacaaattttgaattgcc-tgtgacacaattactctcccttaagGATACGATGGCCCGGAAGCCTGCTGATCCTGAAGAAGAACTTCGGTGGATGTCTCAAGAAGTTCGTGGTTATGTAGAGGCTGTTTTGAACAGTTTGGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 3'ss of exon 18
-----ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
| | | || | | | | | || | | || ||| | |||| || | || | || || | ||| | ||||||| ||||| | |||||||| ||||| |||||||| || |||||||||| || ||||| |||||||||||||| |||||| |||| || || || |
atgttccttaagataaacatgttgtattgttgttgttggcatgagttacttactt-ccatttgacctttca--attgacatctgat--ccctgcacttttcaaagGATACTATGGCACGGAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCCCATGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 18
----------------------ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
|||| | || ||| | | ||| || | | | | || || | | |||| |||| ||||| |||| || ||| |||| || | ||||| || |||||||| |||||| ||||||||||| ||||| ||||| ||||||||||| | ||| ||||| |
gtaagtcagaatccttcttttattcttcaaaaagttcatcgtgaaaagattttgaaaatcatcttctagagtagaaaggattaattagtatatcgtttttgtaatcctttcctatttt-cagGACACGATGCTTAGAAAGCCAGTAGATCCTGAGGAAGAGCTTAAATGGATATCTCAAGAAGTCCGTGGGTATGTGGAAGCTGTTCTCAGCAGTCTTGCGG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM5G870253_T01 (Zea mays), 3'ss of exon 2
ttctgtactggccccagaacataa-attctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
|| | | | | || | | || | | || | || | | || | | || | | || | | |||| ||||||||||||| | || ||||| ||||| |||||||| || |||||||||||||||||||| ||||||||||||||||||||| ||||||| | ||||
ttttatcttacctaaaggctaaagcatgttttcatttaaatgtatccaaacacaagatcacttattttactcttcattctacaactcttttctgttta-agGATACAATGGCTCGGAGGCCTGCTGATCCTGAAGAAGAACTTCGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTTTGAACAGTTTGGCTG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G157462_T01 (Zea mays), 3'ss of exon 18
---------------------------------------------------------------------------------------------ttctgta----ctggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
| |||| | || ||| ||| || || || | | ||| |||| || | || | || | ||||||| ||||| | |||||||| ||||| |||||||| || ||||||||||||||||||| ||||||||||| || |||||| |||| || || || |
gtaagttctagattaatacataattgtattgcatttctagctttcttttgtcgttttgctctactcaactaaatcatgatttattaaggatcatcatgtaatttcaggtccccttgtatattttggatgtgccaatataaatatttttccattaaaatacaca-aactaacatctgaccatac--atttttcaaaagGATACTATGGCACGTAGACCTGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTCGAGGCTGTTTTGAATAGTCTGGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM5G811223_T01 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------------------------ttctgtact-ggccccagaacataaattcta--tagttcacat-tttttcatttgttatta--------ggtcttttgtggtt-----actgtttggttgccttgaaaatttt--atagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
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gtaagttctaggttaatacataattgaattgcatttctagctttccttttgtagttttgctttactcaattaaatcttgatttattagggatcatcatgtaatttcaggttcccttgtatgttttggatgtgccaatataaatactgctccattaaaatacacaaactaaacatctgatcatacacttttcgaaagGATGCTATGGCGCGGAGACCAGCTGATCCTGAAGAAGAACTTAGATGGATGTCTCAAGAAGTTCGTGGTTATGTTGAGGCTGTTTTGAATAGTCTGGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA07G40300.1 (Glycine max), 3'ss of exon 18
-ttctgtactggccccagaacataaat---tctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaat--tttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
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cttttttagaaggtaca-aacatgaaccaatttacagtcca---tctaggattcactttcggat-tctcataacaatttctccat-gttgcaaaaatcgtccgtagGATACGATGGCCAGAAAACCTGCAGATCCAGAAGAGGAGCTCAGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTCGCTG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA17G00480.1 (Glycine max), 3'ss of exon 18
--ttctgtactggccccagaacataaat---tctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
|| | || | || ||||| || | || ||| || | | ||| | || ||| | || | | | | | || || | ||||||| |||||||| | |||||| |||||||| || |||||| ||||||||||||||||||| ||||||||||||||||||||||| ||||||||||| |
gcttttttagaaggtaca-aacatgaaccaatttacagtcca---tctagaattcact-ttcggtttcttatatcaatttctccatgttgcaaaatcattcaaagGATACGATGGCCAGGAAACCTGCAGATCCAGAGGAGGAGCTCAGATGGATGTCTCAAGAAGTCCGTGGTTATGTTGAAGCTGTTCTTAACAGCCTTGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 18
-----ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
|| | ||| | | | || || | | || | ||||| ||| |||| | | || || | | |||| || ||||| | || |||||| |||| || | ||| |||||||||||| |||||||| |||||||| |||||||| || ||||| |||||||||||||| ||||||||||| |
actacttttaaacttgacataagttatg--tttgacatttaaggttttt--attgtttataatattttctgagacttacgttttttt-ccttgtctgtatttcagGATAAGATGGTTAGGAAACCCATCGATCCAGAAGAGGAGCTCCGGTGGATGTCCCAAGAAGTACGGGGTTACGTTGAAGCTGTTCTTAACAGCCTTGCAG
upper sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 18
--ttctgtactggccccagaacataaattctatagttcacattttttcatt--tgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
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agggttaagatagctttgtttgggcatgtgaggcgtttaggtttccggatgggtggtattacag-ttttgccttggttgtctaatttttttcc---tttttcagGATAAGATGGTAAGGAAACCGGTCGACCCGGAAGAGGAATTACGGTGGATGTCCCAAGAAGTACGGGGTTATGTTGAAGCTGTTCTCAACAGTCTAGCTGMapped 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|30135425|gb|CB920763.1|CB920763EST: AGGGTGAATCTGGTCTTACCATGCGGCAAAGTCTTTCTGATGGTTCTCTT GATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATG
genomic: AGGGTGAATCTGGTCTTACCATGCGGCAAAGTCTTTCTGATGGTTCTCTTgtgagtcctt ... aattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
ttgaaaattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgtactggccccagaacataaattctatagttcacattttttcatttgttattaggtcttttgtggttactgtttggttgccttgaaaattttatagGATACAATGGCCAGAAGACCTGCCGATCCAGAAGAAGAGCTCCGATGGATGTCTCAAGAAGTGCGTGGTTATGTTGAAGCTGTTCTGAACAGCCTTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - -ggcccca
- - - - - - - - - acataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttgcc