Sequence
atgc intronic sequence ATGC exonic sequencegtgaaaattattgcacctttgacatgtgaaattaacttttacatgtgatttttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os06g07200.1 (Oryza sativa), 3'ss of exon 9
gtgaaaattattgcacctttga--catgtgaaattaacttttacatgtgatttttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
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gtaagaagtatattaacttcaaatcatctgttaacaaatct-gcatatggtgtgt--tgcttacacctggccaaatttt-cagACAATTGACAAGCTGATAGAAACTGGGGACAGTGAGCAAATTTTTCAGAGAGCTATTCAGGAACAAGGCCGTGGAAGG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G27050.1 (Glycine max), 3'ss of exon 9
------------gtgaaaattattgcacctttgac-atgtgaaattaacttttacatgtgattt-----ttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
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gtattctttcttttcttaactattattcattagctgatgcagagctga--tggaaatgtcttttaggagtttgtcttctaatcatataactatgtacagACAATTGACAGATTAATTGAAACTGGAGATAGTGAACAAATTTTCCAGAAGGCTATTCAGGAACAAGGACGAGGCCAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G03800.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgaaaattattgcacctttgacatgtgaaattaacttttacatgtgatttttcatgatc--taattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
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------gttcttataactccgatttaattgattaataccctattgaattagttcatgattgttaattttcgggtgtgt---agacagTTGATAGATTGATTGAAACTGGAGACAGTGAGCAAATTTTCCAGAAAGCAATCAGGGAGCAAGGACGAGGACAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G08080.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgaaaattattgcacctttgacatgtgaaattaacttttacatgtgattt---ttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
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--gtaagtaaagtagtctctgagtgttgttatgctctcagaagtttgaataaaactcatgct-tgaccatttcttgtttttcagACTATTGATGAATTGATTGAAACTGGAAACAGCGAACAGATCTTCCAGAAAGCGATTCAGGAGCAAGGAAGAGGACAG
upper sequence: Vv08s0032g00440.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G08080.2 (Arabidopsis thaliana), 3'ss of exon 9
gtgaaaattattgcacctttgacatgtgaaattaacttttacatgtgattt---ttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG----------------------
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--gtaagtaaagtagtctctgagtgttgttatgctctcagaagtttgaataaaactcatgct-tgaccatttcttgtttttcagACTATTGATGAATTGATTGAAACTGGAAACAGCGAACAGATCTTCCAGAAAGCGATTCAGGAGCAAGGAAGAGGACAGGTTCGAGCTATTCCGTTTAATTMapped 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|71857722|gb|DT006777.1|DT006777EST: TGACTGGCACAAGAGCTGATGAGGAG ACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAA
genomic: TGACTGGCACAAGAGCTGATGAGGAGgtgaaaatta ... tattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAA
EST:
gi|110419016|gb|EC985205.1|EC985205EST: TGACTGGCACAAGAGCTGATGAGGAG ACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAA
genomic: TGACTGGCACAAGAGCTGATGAGGAGgtgaaaatta ... tattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaattaacttttacatgtgatttttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
atctaattcttcaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaaattattgcacctttgacatgtgaaattaacttttacatgtgatttttcatgatctaattcttcaatattttacagACAATTGACAGATTAATTGAGACTGGAGACAGTGAACAAATTTTCCAGAAAGCAATTCAGGAACAAGGACGAGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA