Sequence
atgc intronic sequence ATGC exonic sequence...gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g45670.1 (Oryza sativa), 3'ss of exon 6
gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatct---atgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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---ttgaaaccaacaaaaggcatatttaattcataatttccttagcatgcaattttcaaactcgacatttcaactgacgtgtgtccatttttctcccctttagGCATTGTTGTTAATGAGAAATCTCTCCATCAATTTGACTAGTCCTGATTTTGAAGATCAG
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G118693_T02 (Zea mays), 3'ss of exon 6
gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacat----aattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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---aaaccaataggtggcacgctgaaatcatcatttcctcaaaattatggtttgggtctctgcctgtgtttacttattgacatgtgtgtctgtttaccatt-agGCGCTGTTGTTGATGAGGAATCTCTCCATCAATTTGACCAGTCCTGATTTTGAAGATCAA
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM5G833032_T03 (Zea mays), 3'ss of exon 5
-----gctgtagata-tggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttat-ttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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tctgtattgaaaccaataggtggcacgctgaattcatcatttcctcagagttatggttcggaact--ctgcctgtgttaactctctgtctgtttatcatc-----agGCACTGTTGTTGATGAGGAATCTCTCCATCAATTTAACCAGTCCTGATTTTGAAGATCAA
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G29740.1 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------------gctgtagatatggctggctc---actgtacagatcaacttatgtttctcata-ctatgaacataattatttatttatctat--gtatttattgggcttc--------tgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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gtatgtctatgttcctccactccaatatttgctattctgctcagctagattggattctgttatagatactccttaagttgacattaaagctttatttgaacctgacttattgactagtgtctactacaattgtataaatgactttatgcttgttcaaaagtacttacaaaatgtccttggctgtttttagGTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCAT
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G24400.1 (Glycine max), 3'ss of exon 6
---gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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tgaacctgacttattattgagtta-tgtctactacaa-ttgtataaatgactttacgctcgtccaaaagtacttacaaatgtatgtccttgtctgtt-tttagGTGCTACTGTTAATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGCATCAT
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G37520.1 (Glycine max), 3'ss of exon 6
gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT----------------------------------------
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cctttgtgttaatttgtgtcaactgttaccacgatataagtgaacttaagcttcaaagttctaatacatttattctctctctgaccttggctatattcagGTGCTATTGTTGATGAGAAACCTGTCTATCAATTTAGCAAGCCCAGATTTTGAGGACCATGTAAGTATTCATGTCAACTATCTTTGTATTACTATTACTA
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G30250.1 (Glycine max), 3'ss of exon 6
gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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cctttgtgttaatttgtgtcaactagtgcatcaatataagtgaacttgagcataagagttctaatacatttattctctctctgaccttggctatattcagGTGCTATTGTTGATGAGAAACCTGTCTATCAATTTAGCAAGCCCAGATTTTGAGGACCAT
upper sequence: Vv16s0050g01180.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G52660.2 (Arabidopsis thaliana), 3'ss of exon 6
--------------gctgtagatatggctggctcactgtac--agatcaacttatgtttctcatactatgaacataattat-ttatttatctatgtatttattgggcttctgtc---cagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
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gtacgtttcttgtcttttcagttttcacttttacatcaatcttaattgaaaccacgtcggtccaatggaacaaatggttaaactaatcatttttttcctttgtttgcccccaccaaacagGTGTTACTATTGATGAGAAATCTATCCATCAACTTGTCTAGTCCTGACTTTGAGGATCATMapped 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|32269462|gb|CD718621.1|CD718621EST: CTGGCCATTTACAGAAGCTAAAAAAGATGGATCCAATAGATGTTGAAACA GTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTT
genomic: CTGGCCATTTACAGAAGCTAAAAAAGATGGATCCAATAGATGTTGAAACAgtatgtattc ... ttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
cttctgtcc CT-rich tract
tatgaacataattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctgtagatatggctggctcactgtacagatcaacttatgtttctcatactatgaacataattatttatttatctatgtatttattgggcttctgtccagGTGTTGCTGTTGATGAGAAACCTCTCCATCAATTTGACCAGCCCTGATTTTGAGGATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - tggctgg
- - - - - - - - -ctcactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aacataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgta