Sequence
atgc intronic sequence ATGC exonic sequence...cggttatttttttttttaacaatcaagttgttaaaagtacttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g05240.1 (Oryza sativa), 3'ss of exon 10
--------------cggttatttttttttttaacaatcaagttgttaaaagtacttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
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gtataaaactagttttgtattattgctccttatcattttttttatttcatatcaaacattttgttgctgctacttttcatgctaactagcaatctatgcttttttgtgttg-agGTATCCAATCTATGGTGGGATGCAAGACTGGAACTATATACATGGAGGTTGCTTTGAGTTAACCCTGGAAATTAGTGACGTAAAATGGCCAAAGGCAGCT
upper sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G106683_T02 (Zea mays), 3'ss of exon 10
----------------cggttatttttttttttaacaatcaagttgttaaaagtacttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
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gtaaacgaacaatagcaagttcatacttcatatgagatttcctttatctag-gtactaggtaggttgtgtatgtgttggctttgaatcaa--acaacatcattgcttgtggtccagGTACCCAATATATGGTGGTATGCAGGACTGGAACTATATACATGGAGGCTGCTTTGAGTTAACTCTGGAGATTAGTGACACAAAGTGGCCAAAAGCAGAT
upper sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G36590.1 (Glycine max), 3'ss of exon 10
cggttatttttttttttaacaatcaagttgttaaaagt-acttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
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---gtattgttgtatgaaagtattgcatagtagttcatgactgaaatcctattccttttaatatgtgc---acaatt--tacaaatagtactga-ctgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTAGTGATAATAAATGGCCTAATGCTGCT
upper sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA20G31000.2 (Glycine max), 3'ss of exon 3
cggttatttttttttttaacaatcaagttgttaaaagt-acttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
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---gtattgctgtataaaagtattgcatagtagttcatgactgaagtctgtttccttttaatatgtgc---acaatt--tacaaatggtactca-ctgcagGTACCCTCTATATGGGGGAATGCAAGATTGGAACTATATACATGCTGGCTGTTTTGAGTTGACCCTGGAAATTTGTGATAATAAATGGCCCAGTGCTGCT
upper sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G71696.1 (Arabidopsis thaliana), 3'ss of exon 9
cggttatttttttttttaacaatcaagttgttaaaagtacttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
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-------------gtatcaca-tcaagtcccctta-----ctctgtcttattcaacaaatgagtttcttggttaatgctttaagcaaaacgct-ctacagGTACCCAATTTATGGTGGCATGCAAGACTGGAATTACATATATGGGGGATGCTTTGAATTGACTCTGGAAATAAGCGACAACAAGTGGCCTAAAGCCTCAMapped 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|161718235|gb|FC066954.1|FC066954EST: ATGTCTTTGAGCAAGGAATTTGAAGGAGGAATTACAAATGGAGCATTTTG GTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTG
genomic: ATGTCTTTGAGCAAGGAATTTGAAGGAGGAATTACAAATGGAGCATTTTGgtatgaaaat ... ttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
cttttctgc CT-rich tract
tttttattttctgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cggttatttttttttttaacaatcaagttgttaaaagtacttctcttttcttctttttattttctgtttagcaattgcttcaagaaaaacttttctgcagGTACCCCATATATGGTGGCATGCAAGATTGGAACTATATACATGGTGGCTGTTTTGAATTGACACTGGAGATCAGTGACAACAAGTGGCCTAACACTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - -caatcaa
- - - - - - - - - - - - - - - - aaaagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaa