Sequence
atgc intronic sequence ATGC exonic sequence...ttctgtttgcttgcactcttaaaatatacataggacttatcaattgctactgtttcagtggaatcttgaatttggtaattcatgaacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G09370.1 (Glycine max), 3'ss of exon 5
---ttctgtttgcttgcactcttaaaatatacataggacttatcaattgctactgtttcagtgg-aatcttgaatttggtaattcatgaacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
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tgatactttcttactacaattttcactctttaat-gtatttagtagtggtgcttatgatggggataaaattgg---tgctaattttggcatgcttccacaccagGATGCAGCTTCCCTCTCAGTTGCAATCTTGAAGAAAAAATTCCGTGGGCAGATTTTCTTGGGTTGTGATAATCATCCTTTGTCTAG
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G28660.1 (Glycine max), 3'ss of exon 6
ttctgtttgcttgcactcttaaaatatacataggactt--atcaattgctact-gtttcagtggaatcttgaatttggtaattcatg-aacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
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----acaaactaaaacattggattttcttatctccttttggtcatttagtatttgttaatatgaaaagttgaatacattgtttaatgtgccgctttaaagccagGATGCGGCTTCCCTCTCTGTTGCAATTTTGAAGAAACAATTTCATGGGCGGATTTTCTTGGGTTGTGATAATCATCCCTTATCCAG
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G26450.1 (Glycine max), 3'ss of exon 5
ttctg-tttgcttgcactcttaaaatatacataggacttatcaattgctactgtttcagtggaatcttgaatt--tggtaattcatgaacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
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tgatacttttctagtacaatttacattc---tttaatgtatttagtagtggtgcttatgatggggataaaattggtgctcattttgacatgcttccacaccagGATGCAGCTTCCCTCTCAGTTGCAATCTTGAAGAAAAACTTCCGTGGACAGATTTTCTTGGGTTGTGATAATCATCCTTTGTCTAG
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G10460.3 (Glycine max), 3'ss of exon 5
ttctgtttgcttgcact-cttaaaatatacataggact-tatcaattgct-actgtttcagtggaatcttgaatttggtaattcatgaacacttctataac-agGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
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--------gaatacattgtttaatgtgtttaatgtgctgctttaaaggttgaaaagttgaatacattgtttaat---gtgtttaatgtgctgctttaaaaccaggatgcagCTTCACTCTCTGTCGCAATTTTAAAGAAACAATTTCGTGGGAGAATTTTCTTGGGATGTGATAATCATCCCTTATCCAG
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G10460.2 (Glycine max), 3'ss of exon 5
ttctgtttgcttgcact-cttaaaatatacataggact-tatcaattgct-actgtttcagtggaatcttgaatttggtaattcatgaac-acttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
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-aaaagttgaatacattgtttaatgtgtttaatgtgctgctttaaaggttgaaaagttgaatacattgtttaat---gtgtttaatgtgctgctttaaaaccagGATGCAGCTTCACTCTCTGTCGCAATTTTAAAGAAACAATTTCGTGGGAGAATTTTCTTGGGATGTGATAATCATCCCTTATCCAGMapped 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|34320535|gb|CF373289.1|CF373289EST: GGACTGTTGAAGCCCGCCCTGATCACATCCTCAATCTTATACACTATGAG GATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAG
genomic: GGACTGTTGAAGCCCGCCCTGATCACATCCTCAATCTTATACACTATGAGgtgaagtgcc ... tctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctactgtttcagtggaatcttgaatttggtaattcatgaacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
cacttct CT-rich tract
ttgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgtttgcttgcactcttaaaatatacataggacttatcaattgctactgtttcagtggaatcttgaatttggtaattcatgaacacttctataacagGATGCAGCTTCTCTAGCAGTTGCAATTTTGAAGAAGAAACGGCATGGTCAGATTTTCTTGGGTTGTGATAATCATCCCGTATCCAG
- ctgtttg
- - - - -cttgcac
- - - - - - - - - - aaaatat
- - - - - - - - - - - - - - - - - - - - caattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgaac