Sequence
atgc intronic sequence ATGC exonic sequence...agggggaaaaaattaactttcccttcatctgttctgattgatggttgtggctactcatcaatttccagaatcttattgagctctttcatttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g30750.1 (Oryza sativa), 3'ss of exon 8
--------------------agggggaaaaaattaactttcccttcatctgttctgattgatggttgtggctactcatcaatttccagaatctta--ttgagctctttcatttgt-atttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
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gtatgtgtttttttttcattttaatttaagttttgtttttcttttgactaatgatactttttttttctgccagtgtggtgttgcgccttgccttagtctaatgccctttattggttattgcagTTATCGAGGTGGAGTTGACAGTGAAGGACGCCCGGTTATGGTTGTTGTTGGTGCACACTTTCTTCTTCGCTGCTTGGATCTTGAACGGTTTGTTCTACAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 9
agggggaaaaaattaactttcccttcatctgttctgattgatggttgtggctactcatcaatttccagaatcttattgagctctttcatttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
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agcctatcaatcttaatgcttcatgtatgtgttcagactaatctttttaagggtttatatgatttttgcaattaatgtccgagatatatgtgtttttcagCTATCGTGGTGGGGTAGACAGTGAGGGTCATCCTGTCATGGTTGTTGTGGGGGCCCACTTTTTACTTAGGTGCCTTGATCTGGAGCGATTTGTGCTCTAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 9
agggggaaaaaattaactttcccttcatctgttctgattgatggttgtggctactcatcaatttccagaatcttattgagctct-----ttcatttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
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-----tctggcattcttacatttcttaaccaatcaaaaagaagatttcatgcatgtgttcagattgatatttacatttaatttcagaagtatatatgtttttcagCTATCGCGGAGGGGTAGACAGTGAGGGTCGTCCTGTCATGGTTGTTGTGGGGGCTCACTTTTTGCTTAGATGTCTTGATCTGGAGCGATTTGTGCTTTAT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 9
----------agggggaaaaaattaactttccctt-catctgttctgattg-atggttgtg-gctactcatcaatttc-cagaatcttattgagctctttc---atttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
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gtatgtccttggttttctttccctcgctttcccttgcataagttcactttatatgcccttgagccaatgcctaatggaacagacattgacaaagcccgttctgttttctttcttcagCTATCGTGGTGGTGTTGACACCGAGGGTCATCCTGTAATGGTTGTTGTAGGAGCTCACTTTTTGCTGCGATGTCTTGATCTGGAGCGTTTTGTACTTTATMapped 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|77580521|gb|DV219155.1|DV219155EST: CTGAAATTGCAGAAATGAAAATTGT TTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGG
genomic: CTGAAATTGCAGAAATGAAAATTGTgtaagcattt ... tgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGG
EST:
gi|45368236|gb|CK906595.1|CK906595EST: TGCAG-AATG-AAATTG- TTACCG-GGT-GTGTAGACAGT-AGGGCC-TCCCATAATGG-T-TTGTGGG
genomic: TGCAGAAATGAAAATTGTgtaagcattt ... tgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtggctactcatcaatttccagaatcttattgagctctttcatttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
ctctttcattt CT-rich tract
tttcatttgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agggggaaaaaattaactttcccttcatctgttctgattgatggttgtggctactcatcaatttccagaatcttattgagctctttcatttgtatttcagTTACCGTGGTGGTGTAGACAGTGAGGGCCGTCCCATAATGGTTGTTGTGGGAGCACATTTTCTTCTGCGATGTCTGGATCTTGAGCGGTTTGTGTTCCAT
- - - aaaaaat
- - - - - - - - ctttccc
- - - - - - - - - - - - - - - - -ctgattg
- - - - - - - - - - - - - - - - - - - - - ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - actcatc