Sequence
atgc intronic sequence ATGC exonic sequence...ttgttgtgattctgttctttttgctattctaatgaattttttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g55560.2 (Oryza sativa), 3'ss of exon 6
ttgttg-tgattctgttctttttgctattctaatgaattttttgctagttcggttttccttttctcgagttttaaaactttggga---tttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
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-cgttgatgagtatatggttatt-ctgtg--agtggactttatagtttttaggtttaaccttgctgcgtttctaattatttttccctttttatcttcttttcagTTGAGTACTGCAGCTCCTAATCTTTCACTGAAGGGAACTCCATACTGGATGGCTCCTGAG
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 8
--ttgttgtgattctgttctttttgctattctaatgaat-tttttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
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tatggtttcttttgaaatttacttgttggtttcacgaataccattgctaactagtagcttttgtgccctaat---aatactttttggatgtctatgtccacagCTAACTGGACATGTTGCAGATCTTTCTTTAAAGGGAAGTCCATATTGGATGGCTCCAGAG
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 7
----ttgttgtgattctgttctttttgctattctaatgaattt--tttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
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attcttattctgcgctgttgaattttggtgtttcatcaagtttaatctgtacatgaggtgtttcatt-----aagtttataactt-gggatctttatgttgcacagCTAACTGGGTTTGAAGCTAATCTTTCTTTGAGGGGAAGTCCATACTGGATGGCTCCAGAG
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 9
-ttgttgtgat---tctgttctttttgctattctaatgaattttttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
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ttttttatgacatatatataattatggtttctccaatataccattgccactagtagcttttgtgtccccaa----taatacttttgggatgtctatgtccacagCTAACTGGACATGTTGCAGATCTTTCTTTGAAGGGAAGTCCATATTGGATGGCTCCAGAG
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 5
----ttgttgtgattctgttct-ttttgctattctaatgaattt--tttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
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atgcttattctg-tgctgttgaattctggtgtttcattaagtttaatctgtacatgaggtgtttcatt-----aagtttataactt-gggatctttatgttgcacagCTTACTGGGTTTGAAGCTAATCTTTCTTTGAGGGGAAGTCCATACTGGATGGCTCCAGAGMapped 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|161712085|gb|FC061457.1|FC061457EST: TTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT CTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATG
genomic: TTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACATgtgagttctg ... ttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATG
EST:
gi|110689010|gb|EE067915.1|EE067915EST: TTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT CTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATG
genomic: TTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACATgtgagttctg ... ttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
tttgttttcttctc CT-rich tract
agttttaaaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttgtgattctgttctttttgctattctaatgaattttttgctagttcggttttccttttctcgagttttaaaactttgggatttgttttcttctcagCTAACTGGAGCAGCAGCTGATCTTTCTCTAAAGGGAAGTCCATACTGGATGGCTCCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-tgttgtg
- - - - - - - - - - - - - - - - - - - - ttgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaactt