Sequence
atgc intronic sequence ATGC exonic sequence...tccttgattttcttattaaggacttaaatgtaaataattggataagaaactaatcaagatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g01710.1 (Oryza sativa), 3'ss of exon 5
tccttgattttcttattaaggact---taaatgtaaataattggataagaaactaat-caagatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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gaattgaatgcttgctgaagttctgtatgcatgcaaactacattaccagaatctggcaccacttgctgatttg----cctacttaaatttctttgctctgccagCCTACAGTTGCTGCAATTGAAGCTGGGAAAGATATAGCATTGGCGAACAAAGAGACACTTATTGCAGGTGGTCCTTTTGTGCTTCCCCTTGCACAAAAGC
upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G056975_T02 (Zea mays), 3'ss of exon 5
tccttgattttcttattaaggacttaaatgtaaataattggataagaaacta-atcaa-gatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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-atttgaacattatgtggttgctttgtgctgcatcaaataaatgagcaattttatcagtgaatatagctgacttggttacttgtat-tgtttgttctgttagCCTACAGTTGCTGCAATTGAAGCTGGTAAAGACATAGCATTGGCAAACAAAGAGACACTTATTGCAGGTGGTCCTTTTGTGCTTCCCCTTGCACACAAAC
upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G036290_T01 (Zea mays), 3'ss of exon 5
tccttgattttcttattaaggacttaa---atgtaaataattggataagaaactaatcaagatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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aagttaatgtaactgggtttggtttggtgcacccagataaatgagcaatttaccagtgaatatagttgtctcggtaactttgtat-tgtttgttctgc--tagCCTACAGTTGCTGCAATTGAAGCTGGTAAAGACATAGCATTGGCAAACAAAGAAACGCTTATTGCAGGTGGTCCTTTCGTGCTTCCCCTTGCACACAAAC
upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G09740.1 (Glycine max), 3'ss of exon 5
tccttgattttcttattaaggac-ttaaatgtaaataattggataagaaactaatcaagatgacagtc--tgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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--gtttaagaacacagaaaagacactaactaaagatggtattcattgtcacttatca-gacaacagatattagaaagctgaaatcctcttattattttattagCCAACAGTTGCTGCGATAGAAGCAGGGAAATACATAGCTTTAGCCAACAAAGAGACATTGATTGCTGGAGGTCCTTTTGTTCTTCCTCTTGCTCAGAAGC
upper sequence: Vv17s0000g08390.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G02190.1 (Glycine max), 3'ss of exon 5
tccttgattttcttattaaggacttaaatgtaaataattggataagaaactaatca--agatgacagtc--tgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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----gtataagaaaacagaaaatccactaactaaatatggtattggttgtcagttatcagacaacagatattagaaagctgaaatcctctcattattttgttagCCAACAGTTGCAGCGATAGAAGCAGGGAAAGACATAGCTTTGGCCAACAAAGAGACATTGATTGCTGGAGGTCCTTTTGTTCTTCCTCTTGCTCAGAAGCMapped 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|156738151|gb|EV242272.1|EV242272EST: CAGAGGCAGTCACTGTAGTGACAGGAATAGTAGGTTGCGCCCGTTTAAAA CCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAA
genomic: CAGAGGCAGTCACTGTAGTGACAGGAATAGTAGGTTGCGCAGGTTTAAAAgtaagatcag ... ttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAA
EST:
gi|161712672|gb|FC062244.1|FC062244EST: CAGAGGCAGTCACTGTAGTGACAGGAATAGTAGGTTGCGCAGGTTTAAAA CCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAA
genomic: CAGAGGCAGTCACTGTAGTGACAGGAATAGTAGGTTGCGCAGGTTTAAAAgtaagatcag ... ttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaactaatcaagatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
aactaat putative branch site (score: 2)
ttttcttctgtgtctg putative PPT
aaaattttctt 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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tccttgattttcttattaaggacttaaatgtaaataattggataagaaactaatcaagatgacagtctgaaaattttcttctgtgtctgtttttcattagCCTACAGTGGCTGCAATAGAAGCAGGGAAAGACATAGCCTTAGCCAACAAAGAGACCCTAATTGCTGGGGGTCCTTTTGTCCTTCCTCTTGCACACAAGC
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