Sequence
atgc intronic sequence ATGC exonic sequence...agcaagcaacattctcgcttgtctgatgattattttttcctttacaactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G02630.1 (Glycine max), 3'ss of exon 5
-----agcaagc-aacattctcgcttgtctgatgattattttttcctttacaactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
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gcccaaatattttatcaccagtggttgtttggtcggtagaattttcgttgc---taattg-aattctgttggagcttacataaagttgcttcatgttttat--cagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTCCATTTGGTTATGTATGACCTCTGGTTACGCCATCACACGATCAAATACT
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 5
agcaagcaacattctcgcttgtctgatgattattttttccttta--caactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatggga-cagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
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---cagtggttgtttggttggtagaatttttcgttgctaattgaattatttgttgatatgtaatatgttggagctctcataaagttgcttcatgttctatcagGTTCAGAAACACTTCCAATGGAATTCGCCCTCAATCAGATTTGATGCTTTCCATTTGGTTATGTATGACCTCTGGTTACGCCATCACACGATCAAATACT
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ05690 (Selaginella moellendorffii), 3'ss of exon 4
agcaagcaacattctcgcttgtctgatgattattttttcctttacaactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
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---------------------------------gtacgtcctcgcg-ctctctcgaatttgataatcgatcgat---ggttttc------------acagGCTCAAGCCCACTTTGAGTGGCACTCTCCACCGATCAAGTATGATACGTTCCATATGGTTATGTACGAGCTATGGCTGCGCCACTCCACCGTTAGATATT
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ05154 (Selaginella moellendorffii), 3'ss of exon 4
agcaagcaacattctcgcttgtctgatgattattttttcctttacaactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
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----------------------gtacgcatcgaaagctctcctcgcgctctctcgaatttgataatcgatcgat---ggttttc------------acagGCTCAAGCCCACTTTGAGTGGCACTCTCCACCGATCAAGTATGATACGTTCCATATGGTTATGTACGAGCTATGGCTGCGCCACTCCACCATTAGATATTMapped 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|30320804|gb|CD004066.1|CD004066EST: AAGACATACCAGATGCTGAATTCATAGCATTGCATGACAACTTAGTCAAG GTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTC
genomic: AAGACATACCAGATGCTGAATTCATAGCATTGCATGACAACTTAGTCAAGgtaaaaaaga ... catgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTC
EST:
gi|18459571|gb|BM437849.1|BM437849EST: AAGACATACCAGATGCTGAATTCATAGCATTGCATGACAACTTAGTCAAG GTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTC
genomic: AAGACATACCAGATGCTGAATTCATAGCATTGCATGACAACTTAGTCAAGgtaaaaaaga ... catgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
atttgat putative branch site (score: 5)
ttatgatttgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcaagcaacattctcgcttgtctgatgattattttttcctttacaactgcttatgatttgattaccgactgtttgagatgtttgtgtggcatgggacagGTGCAGAAACACTTCCAGTGGAATACACCTCCAATCAAGTATGATGCATTCCATATGGTGATGTATGAGCTTTGGTTGCGCCACCATGTCATCAAATACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
-gcaagca
- - - - -cattctc
- - - - - - - - gcttgtc
- - - - - - - - - - - - - - - - - - - - - - caactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg