Sequence
atgc intronic sequence ATGC exonic sequencegtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g64770.2 (Oryza sativa), 3'ss of exon 7
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagc-tgttttaaattctgatggataactcatttggatctaaag--aagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
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-------gtaggtttcctgttcaata-tacagcttatggtgctttacatgtaggtttcctgttcatttcttatgctgcttttaaactcactcttttggaaaataacataatctcagGGACGGAACATATATGATGGTTGCTGCCAGCTAGACATTCAATATTCTAA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G36770.1 (Glycine max), 3'ss of exon 6
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
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----------------gttgtttagcattcctttcaggctttacttgccttg---ttaattttattattgtttctga---atagtgattgaacttttggaaatttct----agGGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G30820.1 (Glycine max), 3'ss of exon 7
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgtttta--aattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
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----------------gttgtttaacattcctttcaggctttacttgccttgttaattctgat----attgtgtctgaat----ggtgattgaacttttggaaatttct----agGGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G27970.1 (Glycine max), 3'ss of exon 5
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
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----------------gttgttttacgtttacatggagcttgtggcattacttggtttgttaattctattattatttttctgatatgatgattgtacttcgggcaatttctagGGACGCAATATTTATGATGGTTGTTGTCAGCTGGACATTCAGTTCTCAAA
upper sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G08870.2 (Glycine max), 3'ss of exon 1
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
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----------------gttgtttttcgtttacatggagcttgtggcattacttggctagttaattctgatattatttttctgatatgctgattgtacttcttgcaatttctagGGACGCAATATTTATGATGGTTGTTGTCAGCTGGACATTCAGTTCTCAAAMapped 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|110387338|gb|EC951996.1|EC951996EST: TCCAGTATCAATCACGCCAGAGTGCAGTTGCAGCAAGGAATTCTCTTCAG GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
genomic: TCCAGTATCAATCACGCCAGAGTGCAGTTGCAGCAAGGAATTCTCTTCAGgtatgtggtc ... ttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
EST:
gi|351014018|gb|FQ434170.1|FQ434170EST: TCCAGTATCAATCACGCCAGAGTGCAGTTGCAGCAAGGAATTCTCTTCAG GGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
genomic: TCCAGTATCAATCACGCCAGAGTGCAGTTGCAGCAAGGAATTCTCTTCAGgtatgtggtc ... ttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
tccttggcttcttctt CT-rich tract
ttctttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtggtcaattttgtagtcaacaatttactttgaagtggagctgttttaaattctgatggataactcatttggatctaaagaagtttgatccttggcttcttctttatagGGACGCAATATCTATGATGGTTGCTGTCAGCTTGACATTCAATTTTCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT