Sequence
atgc intronic sequence ATGC exonic sequenceTCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgccttttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgct-aatccattatgaaa---atacacttgcctt-ttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca------------------
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TCAGAGCACATACGAGGATGTTGCACGTGACACAAACAGAGGTCACACTGTAGCTGCTGTTGCTGATTGCTTTTGTTTGGCTAAAGATGCTGGTTTTAAGgtagtctccttaaatcattaatcatctcgtttagtcaacttgttgctggcagcatttgttaaaataaagtatcatctcatatggttgaactgttttaatcctccattgattaccttttgatag
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgccttttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca-
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CCAGAGTACATATGAGGATGTTGCCCGTGACACAAACAGAGGACACACAGTGGCTGCTGTTGCTGATTGCTTCTGTTTGGCAAAAGATGCTGGGTTTAAGgtt-----tttttttgtcacctagctttgcttaattgatttt---attatttgtttatgattgttctg--actatcttgatt---caccc--ttttgacag
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G100872_T01 (Zea mays), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgcctt-ttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca
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CCAGAGTACATATGAAGATGTTGCCCGTGACACAAACAGAGGACACACGGTGGCTGCTGTTGCTGATTGCTTCTGTTTGGCAAAAGATGCTGGGTTTAAGgttat-tgtt--ttttttagtcacataactttgtctgattgctttcattgtttgtttatgattattctagttgt-tttgattcacccttttgacag-----
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA06G18150.1 (Glycine max), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgccttttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca---
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CCAAAGCACCTATGAAGATGTTGCTCGAGACACAAATAGAGGACACACTGTTGCTGCTGTAGCTGATTGTTTTTGCCTGGCTAAAGATGCTGGTTTCAAGgttttttactcttaatctcaatctgcacactcagtagaaaacagaact-ttgtcctgatcaaccattatc-ctatgtg-tccctcctgctgcattttttggat
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA04G36790.1 (Glycine max), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgccttttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca---
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CCAAAGCACCTATGAGGACGTTGCTCGAGACACAAATAGAGGACACACTGTTGCTGCTGTAGCGGATTGTTTTTGCCTGGCTAAAGATGCTGGTTTCAAGgttttttactcttatctca-atctgcacactcagtagaaaacataacttttt-cctgaccaaccattatc-ctgtgtgtccctcatgctgcatctttttagat
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 5'ss of exon 4
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgt-------tagatgctaatccattatgaaaatac--acttgccttttgttggaactc--ttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca-----------------------------------------------------------------------------
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CCAGAGCACATATGAAGATGTTGCCCGTGACACAAATAGAGGTCATACTGTTGCTGCTGTAGCTGACTGCTTCTGCTTGGCTAAAGATGCTGGTTTCAAGgtattcccttatagattagtct-ttataaatatttttagttttctcatgttagtatcaagtttatcttggcagctttcacctcc-tatgtttctgttcattaatatccttgaaaccaatgaacatttctttattttagagacactgctaaatttgtatccttacctccgtttttcattttgcctatagMapped 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|71881670|gb|DT030725.1|DT030725EST: TAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATACTGGTTTCAAG GTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGAC
genomic: TAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgct ... tttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCAAAGCACCTACGAGGATGTTGCCCGTGACACTAATAGAGGACATACAGTAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgctaatccattatgaaaatacacttgccttttgttggaactcttgatttgaacttctttcagcaccatttggtttttgcaactagttttctca
- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaata