Sequence
atgc intronic sequence ATGC exonic sequencegtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 3'ss of exon 6
gtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
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gtgagattgact-gcccgtttttcagagtgtgcctgtct-----ttattcctcattatatcatggcactatagatttg-actgaactgcta--------cctctagGTGTGCTACTCCTGGTGGGTGCTCTCAAGCTTGATAATGATTGATAGAGTGCACTGGATTGACAAGGACAAACTTGCAAAATTCATACTAAATTGCCAG
upper sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G124557_T02 (Zea mays), 3'ss of exon 7
----gtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
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gtgaggtttactctgtcacaagtcatgcgtggtctgcattcttcagtac---atgtttccacgagcccgctatggattta---attgaaccct--accaaat-tctcaagGTTTGCTACTCGTGGTGGGTGCTATCGAGCCTAGTCATGATTGACAGAGTGCATTGGATTGACAAGGAAAAGCTAACGAAATTCATACTGAACTGTCAG
upper sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 7
gtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
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---------------------gtgagtgaatcttttcaaatttagattaagttccgtag--attgtcctttctctt---actgg-gttttag----atcttctcagGTCTGCTACTCATGGTGGGTTCTTTCTAGCCTGATCATGATTGATAGGGTTCATTGGATCAGTAAGGAGAAGCTTATAAAGTTCATCTTAGACTGCCAG
upper sequence: Vv12s0134g00150.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 7
gtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
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---------------------gtgagtaaatcttttcaaat---ttaggtttagtgctgta--gattgtcctttctcttact-aggttttag----atcttctcagGTCTGCTACTCATGGTGGGTTCTTTCTAGCCTGATCATGATTGATAGGGTACATTGGATTAGTAAGGAGAAGCTTATAAAGTTCATCTTAGACTGCCAGMapped 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|351047683|gb|FQ455080.1|FQ455080EST: GGCAAGTCAAATCTGGAGGACTAAATGGTCGGCCAGAGAAGCTTCCTGAT GTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCT
genomic: GGCAAGTCAAATCTGGAGGACTAAATGGTCGGCCAGAGAAGCTTCCTGATgtacaatccc ... atctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCT
EST:
gi|161721200|gb|FC071051.1|FC071051EST: GGCAAGTCAAATCTGGAGGACTAAATGGTCGGCCAGAGAAGCTTCCTGAT GTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCT
genomic: GGCAAGTCAAATCTGGAGGACTAAATGGTCGGCCAGAGAAGCTTCCTGATgtacaatccc ... atctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
tatctcttc CT-rich tract
tttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatccctttgcctttctttccttttttctctttcaagggaccatactttcccatgcaatggttcttggtcttcacactgaagtttcaattgtatctcttcagGTCTGTTACTCATGGTGGGTGCTTTCAAGCTTGATCATGATTGACAGAGCTCATTGGATTGACAAGGATAAGCTCATTAAATTTATAATAGACTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA