Sequence
atgc intronic sequence ATGC exonic sequence...cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggccttactaattctaatcatattaagataatgtttttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g06880.1 (Oryza sativa), 3'ss of exon 3
cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggccttactaattctaatcatat-taagataatgttt-ttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
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--gtttattttggttttctccttcatgttgagattcagaagattaatatcttatccctcagatcttattctttcctaacgtaatatgaattgtatatgatagTTGATAGATTGGGCTGAAGGTGGATATTTAACTAATGATTCACCAATGCCTCGGGGTGAAATAGTTATTGGAGGTCCAAACGTGACAAAAGGCTACTTTA
upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os12g07110.1 (Oryza sativa), 3'ss of exon 8
cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggccttactaattctaatcatattaaga--taatgttttt----ctctgtt--tcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
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-------atctttt-ttcagtaatctgattgatctccatattattctagtcactattatctgttggcatcacaccgatgcttgacatttttgtaattatattatccagCTGATTGACTGGTCAGAAGGTGGATACTTAACAAGTGACTCCCCAATGCCTCGAGGAGAGATTGTCATTGGTGGTCCCAATGTAACTAAAGGCTATTTCA
upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G118286_T01 (Zea mays), 3'ss of exon 8
--cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggccttac-taattctaatcatattaagataatgtttttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
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cactgggatatcttatctattcttgtgacagtga---atgagttcttactgttgacctcccacagttcctgacttcctgacatatcagccactgtatttttagTTGATTGACTGGCCTGAGGGTGGATACTTGACTGCTGATTTACCAATGCCTCGGGGAGAAATTGTCATTGGAGGTCCAAATATAACTAAAGGCTATTTCA
upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G117064_T01 (Zea mays), 3'ss of exon 6
cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggcctt--actaattctaatcatattaagataatgtttttctc-tgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
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--ttttattcgtatggtttctt-tcattttgtggtatgagttatttcccttggtttcagacgcaatattgttttcctaacataatttcaatcacgcattatagTTGATAGACTGGGCCGAAGGTGGATACTTAACAACCGATTCACCAATGCCTCGGGGTGAAATAGTTATTGGAGGTCCAAATGTAACTAAAGGCTACTTCA
upper sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G11860.1 (Glycine max), 3'ss of exon 7
cgagaaaatcttataccctgttgtaattttgat-taatgcatttcaatatatggccttactaattctaatcatattaagataa-tgttt-ttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
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----------------gtagtaattgattagatgtaatccacctccatacattttaacctcaaggaatatt-tactaacataaatgctccttttttccctcagCTAATTGACTGGCCCGAAGGTGGATATTCAACCAGTGACTCACCAATGGCGCGAGGTGAAATTGTAATTGGTGGTCCAAATGTCACTCTTGGATACTTCAMapped 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|161716236|gb|FC065864.1|FC065864EST: ATACATCTGTTGGTCGTGTTGGTGCTCCACTTCCTTGCTCATTTATTAAG TTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCT
genomic: ATACATCTGTTGGTCGTGTTGGTGCTCCACTTCCTTGCTCATTTATTAAGgtaagtggat ... tctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatggccttactaattctaatcatattaagataatgtttttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
tgtttttctctgtttc CT-rich tract
ttactaattctaatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgagaaaatcttataccctgttgtaattttgattaatgcatttcaatatatggccttactaattctaatcatattaagataatgtttttctctgtttcagTTGATAAATTGGCCTGAGGGTGGGTATTTAACAAGTGATAAACCAATGCCTCGAGGAGAAATAGTCATTGGTGGTCCAAATGTTACTGTTGGATATTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- agaaaat
- - - - - - - - cctgttg
- - - - - - - - - - - - - - - - - - -gcatttc
- - - - - - - - - - - - - - - - - - - - - - - - tatggcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagataa