Sequence
atgc intronic sequence ATGC exonic sequence...taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: LOC_Os04g52900.1 (Oryza sativa), 3'ss of exon 24
--------taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
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cacaatattgaataaactttcttt-ata-gtagttaccttgttttttttaaacaaacactttggaa-aatttctg--tggaac---ttcatcttgttaacacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTTTAGCTCGTGCATTGCTGCGGAGGGCAAAGATACTTGTTCTTGATGAGG
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 24
-tag-gtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtga-----agGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
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ctattatggatatgctttagaag--tgtgaattctcctgtgtt----tgttttagagatatatattgttga-agtcagtatttattaatgaaaagtgtggtatccagGTATCTGAGGCAGGCGAGAACTTCAGTGTTGGACAAAGACAACTGTTGAGTCTTTCTCGGGCTTTATTGCGTAGATCAAAGATATTAGTACTTGACGAAG
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 25
taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
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-----------------gtacttaattaaatatttccatttggg-------aaagtctcatgtattcagtaataataactcagtctttt----tggtcagGTAACTGAGGCAGGAGAGAATTTCAGTGTTGGACAGAGACAGTTGTTGAGTCTTGCACGTGCATTGTTACGAAGATCTAAGATACTTGTTCTTGATGAAG
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT2G34660.2 (Arabidopsis thaliana), 3'ss of exon 24
taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
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---------------------gtattcagtt--gctgcct-atattgatatgaagtctca-tttttaagtggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAGMapped 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|122689215|gb|EC935332.1|EC935332EST: CACATTTGAAGGATGTTATCAGGAGGAATTCTCTTGGTCTTGATGCTGAG GTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGT
genomic: CACATTTGAAGGATGTTATCAGGAGGAATTCTCTTGGTCTTGATGCTGAGgtacatgctc ... gtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
gagtaac putative branch site (score: 2)
aacttttaaatagaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
-aggtaaa
- - - - - -gccctga
- - - - - - - - - - tgttgtc
- - - - - - - - - - - - - - - -ctgttgt
- - - - - - - - - - - - - - - - - - - - - aactaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacaa