Sequence
atgc intronic sequence ATGC exonic sequencegtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttatgtttctgatgcataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA03G40000.2 (Glycine max), 3'ss of exon 8
gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttat---gtttctgatg------cataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
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gtaattaattgtatgacactt--aaaattcttctgtatg-ctttgatataacaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCTGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTATATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA10G29770.1 (Glycine max), 3'ss of exon 9
gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttatgtttctgatgcataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA-
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-----------------------------------------------------------------------------------------------gtatcaggtttctgtgtttgattcagttgtccaaggaggtgactcagtttgggagGGTCTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAACATCTAGACAG
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 8
gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttatgt---ttctgatgc------ataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
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gtgattaattgtatgacactt--aaaagtctgctgtatgctgttgatagagcaaagcttcagagttatacagattctcatggtttgaaattattaccctgtgatctatcagGTTTCTGTGTTTGATTCAGTTGTCCAAGGAGGTGACTCAGTTTGGGAAGGACTTCGAGTGTATAATGGAAAGATATTTAAGCTTGAGGAGCATCTAGACA
upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 18
gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctca-gtttatgtttctgatgc-ataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
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---------------gtgcttg---agccatacatggatctctgtttgttatttcttgtttatgcttatgtt-ctgatgttatttgtctttattcttgcttaagGTTTCTGTTTTTGACTCGGTCGTGCAAGGCGGTGACTCTGTATGGGAAGGTCTTCGTATATACAAAGGGAAAGTATTTAAGCTTGAAGAACATCTAGACCMapped 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|33401997|gb|CF207624.1|CF207624EST: GCTGCTTGCGATGGGTGGGGGATGAAATTGTACCACGTGAAAGTGCCAAG GTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGG
genomic: GCTGCTTGC-ATGGGTGGGGGATGAAATTGTACCACGTGAAAGTGCCAAGgtactcttat ... tttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcattgagctctcagtttatgtttctgatgcataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
ttctgat putative branch site (score: 3)
tttttttt putative PPT
ataattttgtgatttt 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
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gtactcttatattggatatttggagaatcttcctggaaaattttaacatcattgagctctcagtttatgtttctgatgcataattttgtgattttttttaagGTTTCGGTGTTTGACTCTGTTGTCCAAGGTGGTGATTCAGTGTGGGAGGGGCTTCGAATTTACAACGGGAAGATATTTAAGCTTGAAGAGCATTTAGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA