Sequence
atgc intronic sequence ATGC exonic sequence...aagtgtcttgttgggcgggagctcctgattctatccgtatttgcgaagaatccttatttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g45390.2 (Oryza sativa), 3'ss of exon 1
------aagtgtcttgttgggcgggagct-cctgattctatccgtatttgcgaagaatcc-ttatttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
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tcaattgttcatctctccatgcatgtgttgcctaggtctatt-atactcgttattattctgcgatatattgagttgtgcatgtttctgttctgttataca-------gACCACTAAAAGGAAAGGCTGGATAAACCATAGCATAAAGGGTCCTGAGTCTATTGCTGATCACATGTACCGTATGGCCCTTATGGCTTTGATTGCCGGTG
upper sequence: Vv01s0011g02430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G088397_T01 (Zea mays), 3'ss of exon 1
-----aagtgtcttgttgggcgggagctcctgattctatccgtatttgcgaagaatccttat-ttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
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caatgatttggatcaattcattcatgcccctaatttctttgatgctt----aggtccatcatatcacatgattctggtgcctattccttttgttta--ttctttagACCACCAAAAGGAAAGGATGGATAAACCATAGCATCAAGGGCCCTGAGTCCATTGCTGATCACATGTACCGAATGGCCTTGATGGCTCTGATTGCTGGTG
upper sequence: Vv01s0011g02430.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G14300.1 (Glycine max), 3'ss of exon 1
--aagtgtcttgttgggcgggagctcctgattctatccgtatttgcgaagaatccttatttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
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atacatatgtgtctgaatattg--tgtagactgtatataatttggtaatccatattgaaagaaaataatatggtctctttgtcatatgtatatgccttgtagATCACAAAAAGGAAAGGATGGGTTAATCATGGGATAAAAGGTGCTGAATCGATTGCTGACCATATGTACCGCATGGCTTTAATGGCATTGATTGCTGGCGMapped 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|351054374|gb|FQ450457.1|FQ450457EST: CCTCTTCGTCTTCGGTTATTGATTTCCTCACATTGTGTCATTCGCTCAAG ACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCT
genomic: CCTCTTCGTCTTCGGTTATTGATTTCCTCACATTGTGTCATTCGCTCAAGgtatggatgt ... catcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaatccttatttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
atctcac putative branch site (score: 3)
tctcacttttttacat CT-rich tract
ttttttacatctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtgtcttgttgggcgggagctcctgattctatccgtatttgcgaagaatccttatttacaagcatgtgattgttatctcacttttttacatcttttagACCACAAAAAGGAAGGGATGGATCAATAATGGGATAAAAGGTCCGGAGTCTATTGCTGATCACATGTACCGCATGGCATTGATGGCGTTGATTGCTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- -tgtcttg
- - - - - - gggcggg
- - - - - - - - - - -ctcctga
- - - - - - - - - - - - - - -tctatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaagca