Sequence
atgc intronic sequence ATGC exonic sequence...tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcatcattgctttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 3
tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcat-cattgct---ttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
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--catttttcatttttc--caagtattgatttctgctcctcataacgtgaaccttgatataatgctggaatctatctttcctttataatttcttctccttgaagGTTGCAAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGAACAGGAAATCGAGAAGTTGGCTTTCTAACAAATCGACATGTAGCTGTTG
upper sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G02500.1 (Glycine max), 3'ss of exon 2
tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcatc-attgct---ttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
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--catttttagtttttc--caagtattgatttctgctcctcattatgtgaaccttgatctaatgctggaatctatctttccttcataatttcttctccttgaagGTTGCTAGCCAAGAGACATATGGAACCTTGGGTGCTATTGTCAGAAGCCGATCAGGAAATAGAGAAGTTGGTTTTCTAACAAATCGACATGTAGCTGTTG
upper sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G35155.1 (Arabidopsis thaliana), 3'ss of exon 3
tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcatcattgctttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
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------------------gtacatcgttgttttttccttccatcttctgcaacct-ataagcg-----taaagtctcagttttgtttcatgtt-gtgtagGTTGCAAGCCAAGAAACATATGGAACCTTGGGAGCTATAGTGAAAAGCAGAACAGGTAACCACCAGGTTGGTTTCCTTACCAATCGGCATGTCGCAGTTG
upper sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G45030.2 (Arabidopsis thaliana), 3'ss of exon 3
tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcatcattgctttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
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-------gtaatttgtgtactaaa-----cttgcatatacgcttgtat-tatcgacaatattacaataatcatctggcca--tgcctctcatct-tgtagGTGGCTAGCCAAGAGACATATGGAACCTTAGGTGCAATTGTAAAGAGTAAAACTGGTATCAGACAGGTTGGTTTCCTAACAAACCGGCATGTTGCAGTTGMapped 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|71879554|gb|DT028609.1|DT028609EST: CTTGCGAGGAAGTGATCCATGCATTGGTTCTGGTTCCCAG GTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGA
genomic: CTTGCGAGGAAGTGATCCATGCATTGGTTCTGGTTCCCAGgtatcttgtt ... gttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGA
EST:
gi|71877615|gb|DT026670.1|DT026670EST: CTTGCGAGGAAGTGATCCATGCATTGGTTCTGGTTCCCAG GTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGA
genomic: CTTGCGAGGAAGTGATCCATGCATTGGTTCTGGTTCCCAGgtatcttgtt ... gttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgcatcttcatcattgctttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
cttcttgttc CT-rich tract
tttttcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacacctgaaccttgtcaacaggaatctgtttacacattccattgcttgcatcttcatcattgctttttcaaattgcccaattgcttcttgttcatgcagGTTGCAAGCCAAGAGACATACGGAACCTTGGGTGCTATTGTAAAAAGCCGAACAGGAAACCAACAGGTTGGTTTCCTCACAAATCGGCACGTGGCAGTTG
- cacctga
- - - - - - - - -aacagga
- - - - - - - - - - - - - - - - - acattcc
- - - - - - - - - - - - - - - - - - - - - - gcttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttct