Sequence
atgc intronic sequence ATGC exonic sequencegtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactcactattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g35290.1 (Oryza sativa), 3'ss of exon 4
gtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactcact-attgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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-----------------gtaagtcatttgaca--taatctttattatggc------ctttgtaatttgcaattaatttaactgtatgccttttcgattgaagTTTACCTGTTATCCAAGGCTTAGCTGTTGAAGTCAAGAAGACAATACAGTCATTAATTTCTCAGCTTCTCCAGAAGCTTCGATCAAATATTCAG
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G006781_T03 (Zea mays), 3'ss of exon 4
gtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactcactattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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-----------------gtatgttgtgtaaca--taat-tgcatcacactccctgacatttgctgttata-ttaaccatttactt--ttttccaattgaagTTTACCTGTTGTCCAAGGATTAGCCACTGAAGTCAAGAAGACAGTGCAATCATTAGTTTCACAGCTTCTCCAGAAACTTCGATCAAATATTCAG
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AC235544.1_FGT004 (Zea mays), 3'ss of exon 4
gtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactcactattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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-----------------gtatgctgtataaca--taattgcatcactggccct-ggcatttgctgttata-ttaaccatttaccc---tttccaattgaagTTTACCTGTTGTCCAAGGATTAGCTGCTGAAGTAAAGAAGACAGTACAATCATTAATTTCCCAGCTTCTCCAGAAACTCCGATCAAATATTCAG
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G22880.1 (Glycine max), 3'ss of exon 3
gtgagcttttat--ttcttgtatgctacttgccaactaatatttgttttagctg------------tcaaccttgagaaatgtaactcactattgccctgtt---------ttttc----gcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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gtaagtttatatgcttcttccatgctgtttac-aattaatatacttttaaatagaattctttttcttccatttatattatattattttatttttatgttgttactaaatgtttttcccgggtgcatagGTTACCAGTTATTCAAGCGTTGGCTGCAGAAGTTAGGCTGACTACCCAATCACTTCTTTCTCAGCTTCTACAGAAACTTCGCTCAAATATTCAG
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G04920.1 (Glycine max), 3'ss of exon 3
gtgagcttttat--ttcttgtatgctacttgccaactaatatttgttttagctg------tcaaccttgagaaatgtaa--------------------ctcactattgccctgttttttc---gcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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gtaagtttatatgcttcttccatgctgtttac-aattaatatacctttaaataggattctttttcttccagttttataatattattttatttttctgttcttgttactaaaatgtttttcttgggtgcaaagGTTACCAGTTATTCAAGCGTTGGCTGCAGATGTTAGGCTGACTACCCAATCACTTCTTTCTCAGCTTCTTCAGAAACTTCGCTCAAATATTCAG
upper sequence: Vv04s0008g01350.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G11980.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactc--actattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
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------gtgagttttttgtaatctttctcacgat--acttttacttaaggcctcaaccatca-agctttagctctaaacattatatcttctctctatgtcaagATTGCCAGTTATCCAAGCACTTGCAGCGGAGGTTAGACAAACAACTCAGTCACTTCTCTCACAGCTTCTCCAGAAACTACGCTCAAATATACAGMapped 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|110389066|gb|EC953878.1|EC953878EST: GCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAA ATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATC
genomic: GCTCTTGATTTAGAGGCTTTTGTTTGCAAACTTTCAACAATGCACCCAAAgtgagctttt ... tcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctgtcaaccttgagaaatgtaactcactattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
aactcac putative branch site (score: 2)
ccctgttttttcgctt putative PPT
aaatgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcttttatttcttgtatgctacttgccaactaatatttgttttagctgtcaaccttgagaaatgtaactcactattgccctgttttttcgcttaaagATTGCCAGTCATTCAAGCACTGGCTGCAGAAGTTAGGCAAACAACCCAATCTCTTCTTCATCAGCTTCTCCAGAAACTTCGATCAAATATTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT