Sequence
atgc intronic sequence ATGC exonic sequencegtacgctttagatgcacacttctacctttctttgcagtctaagtggttcttttacatgcgtcctgcagttaattagaaatttgaagattttaccttatctattctaagtgatgcttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G29630.1 (Glycine max), 3'ss of exon 6
gtacgctttagatgcacacttctacctttctttgcagtctaagtggttcttttacatgcgtcctgcagttaattagaaatttgaagattttaccttatct----attctaagtgatgc-ttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
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gtatgttttaaata---acttttgtctcttttaact----------ttttttcaaaaacaaatcattatacagtatgaac---aaagttttgcttcgtatcagaattgtaaatgagggattttgtagGATTTTCGTCTAAAAGATCTTTCTGAGTATGAAGAGTGGTATGGTCAGCCGCATAGAGCACCAGATTTGCAG
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G01220.1 (Glycine max), 3'ss of exon 5
gtacgctttagatgcacacttctacctttctttgcagtctaagtggttcttttacatgcgtcctgcagttaattagaaatttgaagattttaccttatct----attctaagtgatgc-ttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
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gtatgttttaaata---acttttgtctctttt---------aatttttttttcaaaagcaaatcattatacagtatgaac---aaagttttgcttcatatcagaattgtaaatgagggattttgtagGATTTTCGTCTAAAAGATCTTTCTGAGTATGAAGAATGGTATGGTCAGCCGCATAGAGCACCAGATTTACAG
upper sequence: Vv03s0063g01110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G19940.1 (Arabidopsis thaliana), 3'ss of exon 6
gtacgctttagatgcacacttctacctttctttgcagtctaagtggttcttttacatgcgtcctgcagttaattagaaatttgaagattttaccttatctattctaagtgatgcttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
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------------------------------------------gtaatccttgaagaactgttttttttttgttccttttctttcagttataagcccatcta----aaat-acgctttt-cagGACTTCCGGTTGCGTAATATTGCAGAATATGAAGAATGGTATGGTCAGCCTCACAAGGCAGTAGAGTTACAGMapped 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|110729272|gb|EE105384.1|EE105384EST: ACATAATCAAAGCTCTTCCCAAGAGTTTAAAGATTGTTGACCTTTCTGCA GACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCA
genomic: ACATAATCAAAGCTCTTCCCAAGAGTTTAAAGATTGTTGACCTTTCTGCAgtacgcttta ... gcttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaattagaaatttgaagattttaccttatctattctaagtgatgcttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
agttaat putative branch site (score: 4)
tgctttt putative PPT
aaatttgaagatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgctttagatgcacacttctacctttctttgcagtctaagtggttcttttacatgcgtcctgcagttaattagaaatttgaagattttaccttatctattctaagtgatgcttttgcagGACTTTCGTCTGCAAGAAATTGCTGAATATGAAGAATGGTATGGTCAGCCACACAGAGCCCCAGATTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA