Sequence
atgc intronic sequence ATGC exonic sequence...ttattattattattattattattaattttcttttcagggtatgagcacaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G31480.2 (Glycine max), 3'ss of exon 1
-----ttattattattattattattattaattttcttttcagggtatgagcacaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
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attcatcttaaagtccagtctaacttttaattacatttattatatacatataca--tgtgattctaat--tattgttatttatttaattttcatttaattgca-gGTAGAACAAAGGTACAGACAATATCACCACCAAATGCAAATTGTGGTATCATCATTTGAGCAAGCAGCGGGTTATGGGGCGGCAAAATCTTACACTGCCC
upper sequence: Vv06s0009g00410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G38910.1 (Glycine max), 3'ss of exon 2
-ttattattattattattatt--attaattttcttttcagggtatgagcacaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
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ttaattagcttagatacaatttaattacatttattatctacatatgatcatatatatgtgtgtg--tatgtgagattctaattaattttcttttaattgca-gGTAGAACAAAGGTACAGACAATATCACCACCAAATGCAAATTGTGGTATCGTCATTTGAGCAGGCAGCAGGTTATGGGGCGGCAAAATCTTACACTGCCC
upper sequence: Vv06s0009g00410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G10030.1 (Glycine max), 3'ss of exon 3
ttattattattattattattattaattttcttttcagggtatgagcacaa----ttatggtttcagtcctatactgattta-gtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
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----tagggtattcatgcatctttatccaatctacaaaaccatatcataaactatagcgattattattcta-actaacatgtgttttgttcttaacctttgctagGTGGAGCAAAGGTACAGACAGTATCACCACCAAATGCAAGTTGTGCTAACATCGTTTGAGCAAGCAGCGGGTGTTGGTGCGGCAAAGTCTTACACGGCCC
upper sequence: Vv06s0009g00410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G18270.1 (Glycine max), 3'ss of exon 1
--ttattattattattattattattaattttcttttcagggtatgagc-acaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
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aaatggtattcatgc-atttttatccaatctacaaacatatcataagctatagcaattatt--attctaactgttgaatgttatgttctgaactttttgctagGTGGAGCAAAGGTACCGACAGTATCACCACCAAATGCAAGTTGTGATAACATCATTTGAGCAAGCAGCGGGTGTTGGAGCTGCAAAGTCTTACACAGCCCMapped 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|110693884|gb|EE070506.1|EE070506EST: GGCAGGAGCTTCAGATGAAGAAAGCCAAGCTTGTCAACATGCTTGATGAG GTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCT
genomic: GGCAGGAGCTTCAGATGAAGAAAGCCAAGCTTGTCAACATGCTTGATGAGgtacatatat ... gaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
tactgat putative branch site (score: 2)
atttagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttattattattattattattattaattttcttttcagggtatgagcacaattatggtttcagtcctatactgatttagtttgttgcgtatgaattggaagGTGGAGCAAAGGTACAGGCAGTACCACCAACAAATGCAAATTGTAGTTTCTTCATTTGAGCAAGCAGCTGGGCAGGGATCAGCAAAATCATACACTGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - -ggtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cagtcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgttgc