Sequence
atgc intronic sequence ATGC exonic sequence...atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggatgttcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g05660.1 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------------------atatgtaggttggatatgtagatgagtatgttttgga-agttgagtgttctttatttta-ttctcggatgttcaattcatcgtttatttgttttttgtt---cagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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gtgagttatctgatcaatagtttcttctgccttttgttatctttcgctgtttgattatttctactactcttatgcgattgccttactggtggagacagtagtttctttctttatgaatgattatctgttacacatttagcttttcctggttttaattcccgacttttttggatgatggtgaacagGAACTGTTAGACGTTTTCTGGAGAAGCAGAAAGGCAAAATAACTGCTGTTGTCTTTTGTACTACTACATCATCTGATACAGAGATATATAAGCG
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 6
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttatt-ctcggatgttcaattcatcgtttatttgtt-ttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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-gctgttttctg-atgtctgatggataatatattattattaggtttctacactttgtattgttcatctgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 6
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggat-gttcaattcatcgtttatttgtt-ttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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--actgttttctgatgtctgatggataatatattattattaggtttctacactttgtattgtccatttgttctatatattcttctaaggtcattttattcagGAACTGTGCGGCGGTTTCTTGAGAAGCAGAAAGACAATATAACAGCTGTTGTCTTTTGCACTACCAGCACAACTGATACTGAGATATATAAAAG
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 6
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggatgt---tcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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--atataaattataaagtatgatttatgtgtcaagttagc-aagtgtttataaattcgtgaagggtggtatattaatcttaggataaaccatcttttattcagGAACAGTGCGGCGATTTCTTGAGAAGCAGAAAAACAACATAATAGCTGTTGTCTTTTGCACTGTGAGCACAACTGATACTGAGATATATAAAAG
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 6
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggatgttcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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---------------------------------------------------------------gtatattaatcttag-gctaaaccatcttttattcagGAACAGTGCGGCGATTTCTTGAGAAGCAGAAAAACAACATAATAGCTGTTGTCTTTTGCACTGTGAGCACAACTGATACTGAGATATATAAAAG
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 6
atatgtaggttggatatgtagatgagtatgttttgga-agttgagtgttctttatt---ttattctcggatgttcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
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------------gtaagatagttcttctcttcttgaacagtctcttgcttttgatcaaatgactgtcaagtttccaactcgtgggtgtgcggtttt-----cagGAACTGTTCGCCGCTTTCTAGAGAAGCAAAAGGATAAAATCAGTGCCGTTGTTTTCTGTACCACCACATCCTCTGATACGGAGATATACAAACGMapped 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|110698826|gb|EE076764.1|EE076764EST: TACAGAGGCTAAAAATTATCCTCGGGAACCAGCTGCACATGTGGCTATAA GGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTG
genomic: TACAGAGGCTAAAAATTATCCTCGGGAACCAGCTGCACATGTGGCTATAAgtgagatact ... ttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTG
EST:
gi|161715719|gb|FC067810.1|FC067810EST: TACAGAGGCTAAAAATTATCCTCGGGAACCAGCTGCACATGTGGCTATAA GGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTG
genomic: TACAGAGGCTAAAAATTATCCTCGGGAACCAGCTGCACATGTGGCTATAAgtgagatact ... ttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctttattttattctcggatgttcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
tttatttgtttttt CT-rich tract
tttatttgttttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgtaggttggatatgtagatgagtatgttttggaagttgagtgttctttattttattctcggatgttcaattcatcgtttatttgttttttgttcagGGACAGTGAGGCGGTTTCTTGAGAAGCAGAAGGATAAAATTACTGCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caattca