Sequence
atgc intronic sequence ATGC exonic sequenceTCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaataacaatgac...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g50300.1 (Oryza sativa), 5'ss of exon 2
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaataacaatgac---
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TCTCACAAAGAGAGCAAAATTTGGAGAAAATGCATTTCTCAACATCTACCAGAAGCTCTATGAAGCCCCTGATCCATACCCAGCTCTTGCTTCTATGGCTgtatgttctatcta---tcatctactgtagcttatttctaatccccccttccgccttagtatttttgccaaaaccacaaatttccaccaatgcttaacatttt
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G011219_T02 (Zea mays), 5'ss of exon 2
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaataacaatgac--
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CCTCACAAAGAGAGCAAAGTTTGGAGAAAATGCATTTCTCAACATCTATCAGAAGCTCTATGAAGCTCCTGATCCATATCCAGCTCTTGCTTCAATGACTgtatgttctttcaattttttcttctgttgtat-acttgcattcttctaattcaattctcttgtactcccaatcacaaat-gcacagtgggaagtccttactc
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G09890.2 (Glycine max), 5'ss of exon 3
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaataacaatgac--------
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TCTTACGAAGAGAGCAAAGTTTGGAGAAAATGCTTTTCTCAACATCTATCAAAAGCTCTATGAAGCTCCAGATCCTTATCCAGCTCTTGCGTCAATTGCTgtgagttctacc--atttcacttaggtgccctgttctttttattttcaatt---ttttgcactatg---aggatgagataagacttgtaattttattggatgtattac
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA09G31920.1 (Glycine max), 5'ss of exon 4
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaata-acaatgac--
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TCTTACTAAGAGAGCAAAGTTTGGAGAAAATGCTTTTCTCAACATCTATCAAAAGCTCTATGAAGCTCCGGATCCTTATCCAGCTCTTGTGTCGATTGCTgtgagttctagc--attttgcttaggtg-ccctgtttctttattttcaattttttgcactatgtgataggactcatgtaattttattggatgtattacatcat
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT3G18480.1 (Arabidopsis thaliana), 5'ss of exon 3
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaa--gttcaatcttgttttgtttatgtgattc-cactagaagaacttcaattagcttttgaatc--tcatctaatatgaactagcctcttcaataacaatgac
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TATTACCAAGAGGGCCAAGTTTGGGGAGAATGCTTTCCTAAATATCTATCAGAAACTCTATGAAGCACCTGATCCGTTTCCTGCTCTTGCTTCTATTGCTgtaattatccacttatctaatgttaacataatagacacctaaagtcctt----tagcctgagaaccaactaattgctgtattccag-------------------
upper sequence: Vv17s0000g03970.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S1_786V6.1 (Physcomitrella patens), 5'ss of exon 3
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagt--tcaatcttgttttgttt-atgtgattccactagaagaacttcaattagctt-----ttgaatctca--tctaatatgaactagcctcttcaataacaatgac
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TCTTACAAAAAGAGCAAAATTTGGAGAAAATGCTTTCCTCAACGTGTATCAGAAGCTCTATGAGGCTCCTGATCCTGTTCCCGCCCTTTCTTCTGGCGCTgtaagcagccattcctctttcctttcacgttgttggctcctcagactgacaagtaactcaatgctcgaatttcgagtttatgagtaaccaacctatagga----------Mapped 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|30301790|gb|CB978584.1|CB978584EST: AGAAACTTTATGAGGCTCCGGATCCTTATCCAGCTCTTGCTTCAATTGCT GAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAA
genomic: AGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaa ... tgttatgcagGAGCAAGATATGAAATTGTCTGAGCTAGAGTCTGAGAACCGGAAGATGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTACTAAGAGAGCAAAATTTGGAGAAAATGCTTTTCTTAACATCTACCAGAAACTTTATGAGGCTCCAGATCCTTATCCAGCTCTTGCTTCAATTGCTgtaagttcaatcttgttttgtttatgtgattccactagaagaacttcaattagcttttgaatctcatctaatatgaactagcctcttcaataacaatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaca