Sequence
atgc intronic sequence ATGC exonic sequence...gagacaggagttattgataccatgtagttgctgactgttattagatgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g14180.1 (Oryza sativa), 3'ss of exon 2
------------------------------------------------gagacaggagttattgataccatgtag-ttgctgactgttattagatgtttgttgcatgctatccatgtgccaatt-tgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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gtaagcctgtccaaaacatgaattgcatgttttgcgaccgcgaaacttcgaatcgaattcgggaattcgattcgcctttatgctttgtatttgaaactagcctgatacaattgtggtgattgtaatgatttgt--ttatgtatttatcagGTTGAACGAGCGCCTTCAAGAATCCCATGGCGACGAGGTATTGAAGGCAGAAGCAAGCGCAAAGGTGCACAAGTTCACAGAGTGGGCTCTAAAGTGTATC
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G017624_T01 (Zea mays), 3'ss of exon 4
----------------------------------------gagacaggagttattgataccatgtagttgc-tgactgttattagat-------gtttg-ttgcatgctatccatgtgccaatt-tgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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gtaagtttgtcggaaacagctccaatggttacatgctcataacttacaagtattgcatgctttataattccatgagtcttatcgaatccaataagtccacttgaatatcatatttgggcaaattgtgaatgattgttctgtatgtttcagATTGCATGAACGACTTCAAGAATCCCAAGGTGATGAGGTATTGAAAGCAGAAGCAAGTGCAAAGGTGCACAGGTTTACAGAATGGGCTCTAAAGTGTATC
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 1
gagacaggagttattgataccatgt-agttgctgactgttattagatgtttgttgcatgctatccatgtgccaatttg--tctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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aattatgttgaaactggaaacaggttatttactgtttttttgctaaaattt-ctgca-gctatagtttttgcagctcaaatatgaactctgctt-tttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G40370.1 (Glycine max), 3'ss of exon 2
---gagacaggagttattgat--accatgtagttgctgactgttattagatgtttgttgc-atgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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aattatgttgaaactggaaacagattatgtactgcttttttgcta--aaatttctgcagctatagtatttgcagctcaa---atatgaactctgctt-tttgctagGTTGCATGAACGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G44090.1 (Arabidopsis thaliana), 3'ss of exon 1
gagacaggagttattgataccatgtagttgctgactgtta--ttagatgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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--ctcttatgttcttattcctcctggtttatctttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
upper sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G59910.1 (Arabidopsis thaliana), 3'ss of exon 2
--gagac-aggagttattgataccatgtagttgctgactgttattagatgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
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atgttactaaatgtcatagacaaaacaattccgcttaagaaaactttaaatcagtt---tgtttaacatgtgagttcatatttggtttgtacatgatgtatagGTTGCATGAGCGTCTCCAAGAGTGCAACGGGGATGAGATTCTAAAAGCAGAGGCTGGTGCCAAAGTTCAGAAGTTCACTGAATGGGCTCTCAAATGTATAMapped 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|110719143|gb|EE096784.1|EE096784EST: ACAATGAGCCTTGCAGATACAGTAACTGTAATGGCCCAAAG GTTGCATGAGCGTCTTCAGGAATGCAATGGGGATAAAGTCTTGAAGGCAGA
genomic: ACAATGAGCCTTGCAGATACAGTAACTGTAATGGCCCAAAGgtgaaactta ... tgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
gtctcac putative branch site (score: 3)
cttgctt putative PPT
aatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagacaggagttattgataccatgtagttgctgactgttattagatgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT
- - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - -tgactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccattgc