Sequence
atgc intronic sequence ATGC exonic sequencegttagctgtcaagtgctctgctgtctgcaagatcttatatttttgtgattctgcttctatgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 3
gttagctgtcaagtgctctgctgtctgcaagatcttatatttttgtgattctgct--tctatgatctcagcaa--attgctagtact--gtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
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gttggattttctgcaatctgttccct--agtacctggtgtctttgctattattgtaatgtaaagcaacaggaatcattttaaatttttaatagGTACTTTTGGGCGTGTTTTGGAATGCTGGGACCGTGAAACACATGAATATGTCGCAATAAAAGTTGTTCGTAGCATCCGCAAGTACAGGGATGCTGCAAT
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G366935_T09 (Zea mays), 3'ss of exon 3
------gttagctgtcaagtgctctgctgtctgcaagatcttatatttttgtgattctgcttct-atgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
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gttcgggttttctgcaatctgtcgtctcctcttctgg--tgggtatcctcgttattattctaatgaagagggctacgagttgg-gttttcgtagGTACATTTGGGCGTGTTTTGGAATGCTGGGACCGTGAAACACGTGAATATGTTGCCATAAAAGTTGTTCGCAGTATCCGCAAGTACCGTGATGCTGCAAT
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G094039_T03 (Zea mays), 3'ss of exon 3
-gttagctgtcaagtgctctgctgtctgcaag---atcttatatttttgtgattctgcttct-atgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
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gtttgggttttctgcaatctgtcgtctcctcttctgctgggtatctccgttattattctaatgaagagggctacgagttgg-attttcgtagGTACATTTGGGCGTGTTTTGGAATGCTGGGACCGTGAAACACATGAATATGTTGCCATAAAAGTTGTTCGCAGTATCCGCAAGTACCGTGATGCTGCAAT
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G08480.1 (Glycine max), 3'ss of exon 3
gttagctgtcaagtgctctgctgtctgcaagatctta-tatttttgtgattctgcttctatgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
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gttagcggtcaagtgtcct-ctgaatacaagattttaatttttttgtcactgtgcttgtgtcat-tcagcatattgctagtgctgtagGCACATTTGGTCGGGTTTTGGAATGTTGGGACCGTCAAACCAGAGAATATGTGGCTATCAAGGTAGTTAGAAGCATACGGAAATATCGGGATGCAGCAAT
upper sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G32660.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagctgtcaagtgctctgctgtctgcaagatctta----tatttttgtgattctgcttctatgatctcagcaaa-ttgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
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gttagctgtcaagtggcatggtgtgttcgagataaaaaaaatgtttatgtgaatcaaatcgtgccatttcagtgaacttgctggtgttgtagGCACATTTGGTCGGGTTTTGGAATGTTGGGATCGTGATACAAAAGAATATGTGGCAATAAAGATAATTCGAAGCATTAAGAAATACCGGGATGCAGCAATMapped 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|161708718|gb|FC059598.1|FC059598EST: ATAAAATACTCAGCAAGATGGGTGAAG GCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATG
genomic: ATAAAATACTCAGCAAGATGGGTGAAGgttagctgtc ... agtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttatatttttgtgattctgcttctatgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
tatttttgt 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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gttagctgtcaagtgctctgctgtctgcaagatcttatatttttgtgattctgcttctatgatctcagcaaattgctagtactgtagGCACTTTTGGCCGGGTTTTGGAATGTTGGGATCGTGATACACGGGAATATGTTGCAATCAAGGTAGTTCGAAGCATAAGCAAGTACCGTGATGCAGCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG