Sequence
atgc intronic sequence ATGC exonic sequence...gccctgtttggttgttgagaataaggagagagaaaagtttcaatcttataacaatcattgcaactaaaaattgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 11
gccctgtttggttgttgagaataaggagagagaaa--agtttcaatcttataacaatcattgcaactaaaa-attgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
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gtagaaatggaacacccatctccctcacaaacctttcagctttccttgtttgattggtgtggcagtaatctcactcagacatcacctgaaatttc---tgcagGTGTGATGTTTACAGCTTTGGTGTCATCTTGTGGGAATTAGCAACACTTAGGATGCCATGGAGTGGAATGAATCCAATGCAAGTTGTTGGGGCAGTCGGC
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G038982_T01 (Zea mays), 3'ss of exon 7
--gccctgtttggttgttga-gaataaggagagagaaaagtttcaatcttataacaatcattgcaactaaaaattgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
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ttatactttgcaaaaactgaagtatgataggatactcacctcttaacttagttaaattcagtaacgatcttgat-gctgccactacctgaattttg--tacagGTGCGACGTTTACAGCTTTGGTGTCATATTATGGGAGCTGGCAACGCTTAGAATGCCATGGAGTGGGATGAATCCAATGCAGGTTGTGGGGGCAGTTGGT
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA10G30070.1 (Glycine max), 3'ss of exon 12
gccctgtttggttgttgagaataaggagagagaaaagtttcaatcttataacaatcattgcaactaaaaattgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
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aacatatatttagattcacatatatgctagtttctacttttcttacaacaatagccgtgtctattgagtgcatctctattaatcatcatttcaaatacagATGCGATGTTTATAGTTTTGGAGTCATCTTATGGGAGCTTGCCACTCTAAGGTTGCCGTGGAGTGGAATGAATCCTATGCAAGTTGTTGGTGCCGTTGGT
upper sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 12
gccctgtttggttgttgagaataaggagagagaaaagtttcaatcttataaca-atcattgcaactaaaaattga---tataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
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--tatatttag--attcacatatgtgctagtttctacttttcttgtaacaatatatagctgtgtctatcgaatgcatctctattaatcatcatttcaaatacagATGCGATGTTTATAGTTTTGGAGTCATCCTATGGGAGCTTGCCACTCTAAGGTTGCCGTGGAGTGAAATGAATACTATGCAAGTTGTTGGTGCCGTTGGTMapped 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|30303225|gb|CB980019.1|CB980019EST: CCTGAGTGGATGGCCCCAGAAGTTCTCCGCAATGAAAATTCAAATGAGAA GTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAG
genomic: CCTGAGTGGATGGCCCCAGAAGTTCTCCGCAATGAAAATTCAAATGAGAAgtgagtcaac ... tcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataacaatcattgcaactaaaaattgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
tttcactt CT-rich tract
aactaaaaattgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gccctgtttggttgttgagaataaggagagagaaaagtttcaatcttataacaatcattgcaactaaaaattgatataacatgccaaatttcacttacagGTGTGATGTCTATAGCTTTGGAATCATTCTGTGGGAGCTTGCAACTTTAAGGTTGCCTTGGAGTGGGATGAATCCAATGCAAGTTGTGGGAGCAGTAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - tgtttgg
- - - - - - - - -agaataa
- - - - - - - - - - - - - - -gagaaaa
- - - - - - - - - - - - - - - - - - - - - - - -ataacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcca