Sequence
atgc intronic sequence ATGC exonic sequence...aagtttgctgaatccagcctgttgatctacttttctgtgtctcattttcatatttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 19
aagtttgctgaatccagcctgttgatctacttttctgtgtctcattt-tcatatttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
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gtgttccttgtggcatgtaaacggtcacttattcctgataatagttagtcatgtttctttctatacttgatttgaagacttccgggtctattttttcta-gATATATTGAAGAAAGATCATTTCGAAGATTTGTGGAGGCTTGCCTGGAGCAAACAATTGTGGTATACGTTGATCATCTCCTTACTCAG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G161553_T01 (Zea mays), 3'ss of exon 2
---aagtttgctgaatccagcctgttgatctacttttctgtgtctcattttcatat--ttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
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tcgaagttaaatgttaacagtctggagttttgcttacaatagttgtgtctttatgtgctttagtttaataccctttgtgtgtg-tgtgtgtgtgtgttta----gGTATATTGAAGAAAGACCATTTCGAAGATTTGTGGAGGCTTGCATAGAAGAAACAATCGTGGTCTATGTTGATCATCTCCTTTCCCAG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 15
-----aagtttgctgaatccagcctgttgatctacttttctgtgtctcattttcatatttaagttaaaaacatctcttatttactctaa-atcttttgtg-acaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
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tctgtcaatttagtttatcgaatttaaacattaacactctagagtttgcttataatagttgtcttaa-------tgtgctttagtttaatactgtttgtgtgtgtagGTATATTGAAGAAAGATCATTTCGAAGATTTGTGGAGGCTTGCATAGAGGAAACAATTGTGGTCTATGTTGACCATCTCCTTTCTCAG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA03G03120.2 (Glycine max), 3'ss of exon 21
aagtttgc-tgaatccagcctgttgatctacttttctgtgtctcattttcatatttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
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ttgctggtgtgaattgcttctattgcatttatttgaagtttgattgttaaatatttagtttgttgaggaaaactaagt-ttcgaccatccatatattcaagGTACATTGAAGAACGATCTTTTAGGAGATTTGTTGAAGCCTGCCTGGAAGAAACAGTGGTTGTTTATGTTGATCATCTTTTAACACAG
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 21
aagtttgctgaatccagcctgttgatctacttttctgtgtctcattttcatattta-agttaaaaacatctcttatttactctaaatcttttgt---------gacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
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------------------------gtaagtttttctttcccccttttgtttaacaagagccaaaaatgctacaagtctattgaagatgtcgtggtgaatactggatgcagGTATGTCGAAGAAAGATCATTTAGAAGATTTGTCGAAGCATGTTTGGAAGAAACAGTCGTTGTCTATGTTGACCATCTCCTAACTCAGMapped 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|87583918|gb|DY473281.1|DY473281EST: ACAGAGTACTTGGTTGCAACATTTGGTGATTATTTTATGGATGTGAAGAT GTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGA
genomic: ACAGAGTACTTGGTTGCAACATTTGGTGATTATTTTATGGATGTGAAGATgtaagtcctc ... tgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcatatttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
ctctaaa putative branch site (score: 3)
tcttttgt CT-rich tract
tatttaagttaaaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtttgctgaatccagcctgttgatctacttttctgtgtctcattttcatatttaagttaaaaacatctcttatttactctaaatcttttgtgacaaagGTACATTGAAGAAAGATCATTTAGGAGATTTGTTGAAGCTTGCCTGGAAGAAACTGTGGTTGTTTATGTTGATCACCTCCTGACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - -gaatcca
- - - - - - - - -cctgttg
- - - - - - - - - - - - - - - - - - -tgtctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaca