Sequence
atgc intronic sequence ATGC exonic sequence...tttcttcctttaatttctctcttcctctcttctctctctgtctccattttttttgcacgtacaaatttgaaaagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 9
tttcttcctttaatttctctcttcctctcttctctctctgtctccatttttt--ttgcacgtacaaatttgaaaagc-------aactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
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--------caatatggatccccactatttttttaagtatgtcaacattatttgctttctcatataagttgaggaggtcgtactgaagtgtgctgaattctctc-cacagGTGAATGGAGTGGCTGAGTTACACAGCAACATTTTGAAGGAAGAGCTTTTTGCAGACTATCTCTCTATATGGCCCAACAAATTTCAGAACAAAACAAATG
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 9
---tttcttcctttaatttctctcttcctctcttctctctctgt-ctccattttttttgcacgtacaaatttgaaaagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
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gaaattgttggcataacttcaatgtactccaagtagttctggattctccattttctactgctatattatgtcctgaagcgtattc----aaaattttctgacagGTGAATGGAGTGGCTGAGTTGCATAGCAACATTTTGAAGCAAGAACTATTTGCAGATTATGTCTCTATATGGCCTACCAAATTCCAAAACAAAACTAATG
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 10
---tttcttcctttaatttctctcttcctctcttctctctctgtct-ccattttttttgcacgtacaaatttgaaaagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
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caaatattaattttaatttttc-ctataacccttctgtttatgtttgtgaaattgatttca---attgatttatttttacctcttggtgcctatctctttgtagGTGAATGGTGTTGCTCAGTTACACAGTGATATATTAAAGTCAGAATTATTTGCAAATTATGTTTCAATATGGCCAACAAAGTTCCAAAATAAAACCAATG
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 9
tttcttcctttaatttctctcttcctctcttctctctctgtctccattttttttgcacgtacaaatttga--aaagcaactttct--cgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
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--cattttcttaattattatttt--tcttttattcctataaccctgttgtttatgtttgtgaaaattgaatttgatttacttcttggtgtctatctctttgtagGTGAATGGTGTTGCTCAGTTACACAGTGATATACTAAAGTCAGAATTATTTGCAAATTATGTTTCAATATGGCCAACAAAGTTCCAAAATAAAACCAATG
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
tttcttcctttaatttctctcttcctctcttctctctctgtctccattttttttgcacgtacaaatttgaa---aagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
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---------gtaagtggtc----ccactgtcaaagttatgt-tatattgtttcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATGMapped 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|71864360|gb|DT013415.1|DT013415EST: AAAAGCCAGTGGTGCGGATGGCAAATCTGTGTGTGGTATCTGCACATTCG GTAAATGGTGTTGCTCAGTTACACGGTGATATTTTAAAAGCCGAGTTATTT
genomic: AAAAGCCAGTGGTGCGGATGGCAAATCTGTGTGTGGTATCTGCACATTCGgtaagaggtt ... ccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttttgcacgtacaaatttgaaaagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
ccaccctt CT-rich tract
tacaaatttgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcttcctttaatttctctcttcctctcttctctctctgtctccattttttttgcacgtacaaatttgaaaagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG
-ttcttcc
- - - - - - - - - ctcttcc
- - - - - - - - - - - - - - - -ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgaccac