Sequence
atgc intronic sequence ATGC exonic sequence...ctttggagttattcctcatttccataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G02530.3 (Glycine max), 3'ss of exon 1
ctttggagttattcctcatttcca--taactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaa-aacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
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--tattccttttgtcacatttccaactgattgtttgttctttgacaaattataggcttcacggtttcaccc-ttctctgtttatgtttgtgtgtcaataatagGACTATGTGCCCACCGTTTTTGACAATTTCAGTGCTAATGTGGTGGTGGATGGAAGCACCGTAAACCTAGGATTGTGGGATACAGCTG
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G02580.2 (Glycine max), 3'ss of exon 1
ctttggagttattcctcatttccataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
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aatcagctttccaattgattttggttttgttctttaagaattatggctttgtggtttgtttcaccctttttcatttttgttttttgatcatcgataacagGACTACGTGCCCACGGTTTTTGACAATTTCAGTGCTAATGTTGTGGTGGATGGAAGCACCGTAAACCTGGGGTTGTGGGATACTGCTG
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G02540.2 (Glycine max), 3'ss of exon 1
-ctttggagttattcctcatttc---cataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
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gctttccaattgattttggttttgttttttaacgaattatggctttgtggtttgtttctttcacccttttttcatttatgt-ttttcatcattgat---aacagGACTACGTGCCCACGGTTTTTGACAATTTCAGTGCTAATGTTGTGGTGGATGGAAGCACCGTAAACTTGGCATTGTGGGATACTGCTG
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S126_126V6.2 (Physcomitrella patens), 3'ss of exon 2
------ctttggagttattcctcatttccataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaa--acagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
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ggcgtactgcaaggagatgtgttgtg-cgatgtctcccatt---cactaaagtctctggtccctt----caacgatttttaaagcacagataattggtcgttttgcagGATTACGTACCAACCGTGTTTGACAATTTCAGCGCAAATGTCGTGGTCGATGGAAACACAGTCAATCTCGGATTATGGGATACAGCAG
upper sequence: Vv18s0001g14670.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ09765 (Selaginella moellendorffii), 3'ss of exon 1
ctttggagttattcctcatttccataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
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---------------------------------gtgagatttcgttttgttctttcctttttctctaactctcttgggctgggatcgttcatca--acagGATTACGTTCCCACTGTTTTTGATAACTTCAGCGCCAATGTGGTTGTCGATGGCAACACTGTCAACCTTGGGCTCTGGGACACTGCTGMapped 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|46910991|gb|CN546366.1|CN546366EST: TCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACG GATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGAT
genomic: TCGGCAAAACCTGCATGCTGATTTCCTACACCAGCAACACTTTCCCTACGgttagttccc ... accaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
taactat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttggagttattcctcatttccataactgtatttggggagaaaagttactaactatgtgtgtcaacacattcttctgttctcaatgttgaccaaaacagGATTATGTGCCAACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTTGATGGGAGCACTGTCAATTTAGGGTTGTGGGATACTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - catttcc
- - - - - - - - - - - - - - - - - - -ggagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt