Sequence
atgc intronic sequence ATGC exonic sequence...aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgcttttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g10650.2 (Oryza sativa), 3'ss of exon 3
---aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgcttttatt-cttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
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ctctttatgccaaaaataaat--caagaatgctactctggactctggttacta--aaacgtaagaaatatgttactacatttttttcttctatttcttttatagGGTCTCCCAGTTTTTGCCGTTGGTGTTGGGCAGAGCACATATGACAAAGCTTCG
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G44470.2 (Glycine max), 3'ss of exon 1
------aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgctt-ttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
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tattataagaaataaaaaattgcatctttctaaacaatctgaaacactt----ctaccaat---aagtaattcgtaatatctttcttttttggctgaattttgctagGGTCTACCTGTCATTGCTGTTGGTGTTGGTCTCAGTACATATGATAAAGCATCT
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G01630.1 (Glycine max), 3'ss of exon 3
aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttat-catttcctggtttgcttttattcttggct----------agGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
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---------gactgtataaacatcgcagatgatcaataagatg-tcatcccttacataaagtaacatgcatgattgctaattta-ttttatttttggctgagttatgccagGGCCTACCTGTCATTGCTGTTGGTGTTGGGCTCAGCACATTTGATGAAGTGTTT
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G44440.1 (Glycine max), 3'ss of exon 1
------aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgctt-ttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
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tattataagaaataaaaaattgcatctttctaaacaatctgaaacactt----ctaccaac---aagtaattcgtaatatctttcttttttggctgaattttgctagGGTCTACCTGTCATTGCTGTTGGTGTTGGTCTCAGTACATATGATAAAGCATCT
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G44390.1 (Glycine max), 3'ss of exon 2
--aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgctt-ttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
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tattataagaaataaaaaattgcatctt---tctcatcaatctgaaacacttctaccaataagtaattcgtaatatctttcttttttggctgaattttgctagGGTCTACCTGTCATTGCTGTTGGTGTTGGTCTCAGGACATATGATAAAGCATCT
upper sequence: Vv19s0015g00760.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G08350.1 (Glycine max), 3'ss of exon 6
-----aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgcttttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT-
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attataagaaataaaaaattgcatctttctaaacaatctgaaacactt-ctatcaataagt---aattcctaatttttttcttttttggctggattttt--ccaggATCTACCTGTCATTGCTGTTGGTGTTGGGCTCAGTACATATGATAAAGCATCTGMapped 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|30300477|gb|CB977271.1|CB977271EST: GAGCAGTGCGAGACTCACAGCTGACAGGTCTATCCGGCTATACAAAAGAG GGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCA
genomic: GAGCAGTGCGAGACTCACAGCTGACAGGTCTATCCGGCTATACAAAAGAGgtatacaatg ... tcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattactaactcaaagtaacttatcatttcctggtttgcttttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
tttgcttttattctt CT-rich tract
ttttattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggaaaataatttttattttcataggaggtgtttcagatattgattattactaactcaaagtaacttatcatttcctggtttgcttttattcttggctagGGTCTTCCTGTCATTGCTGTTGGTGTTGGGCAGAGCACATTTGACAAGGCATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- -aaaataa
- - - - - - - - - - - - ggaggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagtaa