Sequence
atgc intronic sequence ATGC exonic sequence...atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g40510.1 (Oryza sativa), 3'ss of exon 4
atgttccttcattagttggcttgtagtcttctttcagttttttcaaaat--gagtccaaataaattattcct-acaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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--aattctttgt-agaaaaatagctgtatgatagatgtcagtgcagattttgcctttatctccgtgctgcctcatgttcttaatattctccctgctcttacagGTATTTGATTTGTTTGACACAAAACACAATGGAATTTTAGGATTTGATGAATTTGCTCGTGCACTCTCAGTATTTCATCCAAGTGCTCCACTTGATGAGA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G007555_T01 (Zea mays), 3'ss of exon 4
atgttccttcattagttggcttgtagtc----ttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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-tgtagaaaaattagctgcacgaaaattgtgggtccctgatcttgcttttggttactgatataaaagtaatcatgtccctaatattccttgtc---ccttgcagGTATTTGATTTGTTTGACACAAAGCACAATGGAATTTTAGGATTTGAAGAATTTGCTCGTGCTCTCTCAGTATTTCATCCTAATGCTCCCCTTGATGAGA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G173424_T02 (Zea mays), 3'ss of exon 4
-----atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatga-gtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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tagaaaaattagctgcacaaaaattgtggatccttgatcttgcttttggttactgatataaaagtatatcatgtccctaat--attttcttgtcca----ttgtagGTATTTGATTTATTTGACACAAAGCACAGTGGAATTTTGGGATTTGAAGAATTTGCTCGTGCTCTCTCAGTATTTCATCCTAATGCTCCCCTTGATGAGA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
------atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
||| | | | || | || | | ||| || | | ||| | | |||| ||| || || | | ||| ||| ||||||||||||| ||||| ||||| |||||||| || || | |||||||| ||||| || || ||||| || |||||||||||||| ||| | || || |
tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatga-cattgtattgctataaccattgtcattgttc-----ttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G39940.1 (Glycine max), 3'ss of exon 4
atgttccttcattagttggcttgtagtcttctttca-gttttttcaaaatgagtccaaataaat-tattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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atatttatgatctgattacaagttagttgcataccgtatacatatggggttaaccttagaatttgtatttgtcctgttcatgattttgtactg--tctgtagGTGTTTGACTTGTTTGATACAAAGCACAATGGGATACTTGATTTTGAAGAGTTTGCACGTGCTCTCTCTGTCTTTCATCCCAATGCACCAATTGATGATA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G00830.1 (Glycine max), 3'ss of exon 4
atgttccttcattagttggcttgtagtcttctttca-gttttttcaaaatgagtccaaataaatt-attcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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ttatgatctgattacttaagagttagttgtatgccatatacatatgatgtgaaccttagaatttttatttgtcctgttcatgattttgtactg--tttgtagGTGTTTGACTTGTTTGATACAAAGCACAACGGGATACTTGATTTTGAAGAGTTTGCACGAGCTCTCTCTGTCTTTCATCCCAATGCACCAATTGATGATA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G26570.1 (Arabidopsis thaliana), 3'ss of exon 5
--atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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gtatgttcttctttt--ttaatcaaaagactttgttatccatttgccaa--gatcctttttgaaagat------aacttga----cagtaccaatc--acagGTATTCGATTTGTTTGACACAAAGCATAATGGAATACTGGGGTTTGAGGAGTTTGCGCGTGCTCTCTCTGTCTTTCATCCAAATGCTCCCATAGAAGACA
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G26570.2 (Arabidopsis thaliana), 3'ss of exon 5
--atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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gtatgttcttctttt--ttaatcaaaagactttgttatccatttgccaa--gatcctttttgaaagat------aacttga----cagTACCAATC--ACAGGTATTCGATTTGTTTGACACAAAGCATAATGGAATACTGGGGTTTGAGGAGTTTGCGCGTGCTCTCTCTGTCTTTCATCCAAATGCTC------------
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G55990.1 (Arabidopsis thaliana), 3'ss of exon 5
---atgttcctt-cattagttggcttgtagtcttct-ttcagttttttcaaaat-gagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
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gtaatgtttctttcttcacattataagtgttcttaaacccatttttgtcaagatcaagtttagaagaaatg---ctgaaatatgtgattttgtt-------tctagGTTTTCGATTTGTTTGATACAAAGCACAATGGAATACTGGGGTTTGAGGAATTTGCTCGTGCTCTCTCCGTCTTTCACCCAAATGCGCCTATAGATGACAMapped 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|77582686|gb|DV220332.1|DV220332EST: AACTGGCGTTATTTAAGACAAACAAAAAGGAGAGTTTGTTTGCAGACCGG GTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAG
genomic: AACTGGCGTTATTTAAGACAAACAAAAAGGAGAGTTTGTTTGCAGACCGGgtacactctt ... aatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
aaataaattattccta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - -ccttcat
- - - - - - - - tggcttg
- - - - - - - - - - - - - - - - - - - - - - aaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctacaa