Sequence
atgc intronic sequence ATGC exonic sequence...tcttttatggtcgtaaggttctattttcaagacttgctccatttttagaacttgctctcaaaaataagaggttaatgcaaactgttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g05310.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA20G24330.1 (Glycine max), 3'ss of exon 16
tcttttatggtcgtaaggttctattttcaagacttgctccatttttagaacttg----ctctcaaaaata------agaggttaatgcaaactgttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
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--------tgttgtgtgttttattctacatcacttattacattcttactttttttttcctttcaattatgtgttttacatattaaagtaacttctcactttt--ttccagGTCTATTACTATTACCCCTTCTCAGCTCTTTCTGATACTGCAAAACTTTACAATGATCTTAGATGGAACATCACTAGGCCACAAGGTTTTGAGGCTGTAA
upper sequence: Vv19s0014g05310.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G42720.1 (Glycine max), 3'ss of exon 16
tcttttatggtcgtaaggttctattttcaagacttgctccatttttagaacttgctctcaaaaataagaggttaatgc---aaactg---ttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
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------aatattgcgcgttttaatctacaacacttgatacattcataccttcttttttttcaattatgtgttttacatattaaagtaacttcccacttttttccagGTCTATTACTATTACCCTTTCTCAGCTCTTTCTGATACTGCAAAACTTTACAATGATCTTAGATGGAACATCACTAGGCCACAAGGTTTTGAGGCTGTAA
upper sequence: Vv19s0014g05310.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT4G32640.2 (Arabidopsis thaliana), 3'ss of exon 15
----tcttttatggtcgtaaggttct---attttcaagacttgctccatttttagaacttgctctcaaaaataagaggttaatgcaaactgttg-ccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
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gtaatttccaatattccttaccctttctgattatcgaaaccatgttgagcttgatgtctaggttttgccgcacttacgat--ttcaatcttttaactattttttccagGTGTATTGTTATTACCCTTTCTCAGCTCTCTCAGATCCTCCCAAGCTTTACAATGATCTTAAATGGAATATTACTAGGCCACAGGGTTTTGAGGCTGTCA
upper sequence: Vv19s0014g05310.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G44340.1 (Arabidopsis thaliana), 3'ss of exon 16
tcttttatggtcgtaaggttctattttcaagacttgct-----ccatttttagaacttgctctcaaaaataagaggttaatgcaaactgttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
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---tctgtgaaagtttttcttacttgatatgtcttcctgggaatcttttatggattttaagctctatgttttgattttaacttc--ccattgtaattgtttccagGTTTATTGTTATTACCCTTTCTCAGCTCTTTCAGACCCCCCAAAGTTATACAACGATCTTAGATGGAATATCACGAGGCCCCAAGGTTTTGAGGCTGTCAMapped 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|161716282|gb|FC066514.1|FC066514EST: ATGTAGATATTGCATCTATCGCTGTCATCCCAAGAACTACAGGAGGACAG GTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTAC
genomic: ATGTAGATATTGCATCTATTGCTGTCATCCCAAGAACTACAGGAGGACAGgtaccgttga ... tcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaacttgctctcaaaaataagaggttaatgcaaactgttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
ccctcac putative branch site (score: 3)
ttgccctcactttc CT-rich tract
tcaaaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttttatggtcgtaaggttctattttcaagacttgctccatttttagaacttgctctcaaaaataagaggttaatgcaaactgttgccctcactttcagGTGTATTATTATTACCCCTTCTCAGCCCTTTCTGATCCTGCTAAGCTTTACAATGACCTTAGATGGAACATCACAAAGCCCCAAGGTTTTGAGGCAGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - tgctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgccc