Sequence
atgc intronic sequence ATGC exonic sequence...ctttattctgttgttcttctaattgtctgacagttctttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------------------------------ctttattctgtt---gttcttctaattgtct-gacagttc------tttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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gtaatttcacactaactcttcgcatttactgttatgcctatttatcttgatatgttggacagatcaagtgttttcttatacaatattcaagtcaatttggtgaactagacacaccatgaaatttgtgtattttctctcacaaggaaggatagataccattgagctgcttcttgttccct--gcagTTGGAAGGGGAAGCAACTGCTCGGGCAATTCGATTAGCCAAGTTTGTCAATACACCATTGTATGTTGTTCATGTGATGAGCATTGATGCAATGGATGAGA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G06100.1 (Glycine max), 3'ss of exon 5
-ctttattctgttgttcttctaattgtctga---cagttctttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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ctaatattgtgtgattcttgtaaa-gtctaaatacgaaaatatatgtctatgatttatagaacatttccctatttgactttggttatgtata---cctatgtagTTGGAAGGAGAGGCAACTGCCCGTGCTATTCGTTTAGCTGATTTTGTGAACACTCCTTTATATGTGGTTCATGTAATGAGCATTGATGCAATGGAAGAAA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G18920.1 (Glycine max), 3'ss of exon 6
--ctttattctgttgttcttctaattgtctgaca-gttctttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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tcttatgttgtgtgattcttgtaaagtctaaatatgaaaaatctgtctctgatttatagaagatttccctatttgactttggttatgtata---cctatgtagTTGGAAGGAGAGGCAACTGCTCGTGCTATTCATTTAGCTGATTTTGTGAACACTCCTTTATATGTGGTTCATGTAATGAGCATTGATGCAATGGAAGAAA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G44690.1 (Glycine max), 3'ss of exon 5
----ctttattctgttgt-tcttctaattgtctgacagttc---tttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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ctggttttgtcctcttatatcttgtgattactgcaaagtttaaatgtctgtctgtgtgattgataggacattcttccat---ttgactttgttat-----ctgtgtagTTGGAAGGAGAGGCAACTGCTCGTGCCATTCGTTTAGCAGATTTTGTGAATACTCCTTTATATGTGGTTCATGTAATGAGCATTGATGCAATGGAAGAAA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G04030.1 (Glycine max), 3'ss of exon 5
ctttattctgttgttcttctaattgtctgacagttctttccgtttatttcctggacgtcatgcttttatataatctgtcttttt---tttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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-catgttttgtt-ctcttatattt-tgtgatcactgcaaagtttaaatgtctgtctgtgtgatttataggaaattctcccatttgactttgttatctgtgtagTTGGAAGGAGAGGCAACTGCTCGTGCCATTCGCTTAGCAGATTTTGTGAATACTCCTTTATATGTGGTTCATGTAATGAGCATTGACGCAATGGAAGAAA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------ctttattctgttgttcttctaattgtctgacagttctt-----tccgtttatttcctggacgtcatgct---tttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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gtaatttgcgtcaagcattttccattttattatactgcctcctagattttttcttttctcctatatctgctcttgcctctgtaaagctttgttgaagctactaaaacaagatccttgtttgacaatgt-cagCTCGAGGGAGAGGCCACTGCTAGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGA
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S101_168V6.1 (Physcomitrella patens), 3'ss of exon 5
-ctttattctgttgttcttctaattgtctgacagttctttccgtttatttcctggacgtcatgcttttatataat-ctgtcttttttttggcccttatgc-agCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
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aatgtgtgagcttggccatcca---gatttagtgtttgtttcaattattatcaaactgtgtctcaaataagtcctgcggaacttctgttgtattgtgtattagCTCGAAGGAGAAGCTACGGGAAGAGCTATCCGATTGGCTAAATTTGTCAACACACCCCTCTATGTAGTTCATGTCATGAGCATTGATGCTCTTGATGAGAMapped 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|294965274|gb|GW838961.1|GW838961EST: GGGACATGCACTTTCAAGGCCACCCGTG CTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAAC
genomic: GGGACATGCACTTTCAAGGCCACCCGTGgtaattcctt ... ccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAAC
EST:
gi|30295952|gb|CB972746.1|CB972746EST: AACTTGGCATTACTGGTCCAGAGGGACATGCACTTTCAAGGCCACCCGTG CTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAAC
genomic: AACTTGGCATTACTGGTCCAGAGGGACATGCACTTTCAAGGCCACCCGTGgtaattcctt ... ccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
tctgtcttttttttgg CT-rich tract
ttttatataatctgtc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttattctgttgttcttctaattgtctgacagttctttccgtttatttcctggacgtcatgcttttatataatctgtcttttttttggcccttatgcagCTAGAAGGAGAGGCAACTGCTAGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - -ctgttgt
- - - - - - - - - - - -tgtctga
- - - - - - - - - - - - - - - - - tctttcc
- - - - - - - - - - - - - - - - - - - - - - - -ttcctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgct