Sequence
atgc intronic sequence ATGC exonic sequencegtatattttctttgattgcgcacctgttcttgtgctggcagtatttatttatatattcaggattgtgcgtaattttaatccttcatacctaaaaaatctattcgattttttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 11
------------------gtatattttctttgattgcgcacctgttcttgtg---ctggcagtatttatttatatattcaggattgtgcgtaatt---ttaatccttcatacctaaaaaatctattcgattt------tttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
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gtatggtacttcattgttgtttttctgtttctacttgatacctgtattaatatatcatgttaaatttgagtcttttttcttg-ttgcatatagttcctttatacattttcttcttaaaggtatcccctaggtggggagtgcactttctctttcataaccttgtttaaaaatctttcaagGTTGTGGCTATTGCAACCGCCGCGCTAGAAGGGTTTAAGAATGAATCAAAGAAAATGGTGGTTGCACTAGTTGATATGGAGCGTGCTTTTGTCCCACCTC
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G00430.2 (Glycine max), 3'ss of exon 11
------------------gtatattttctttgattgcgcacctgttcttgtgctggcagtatttatttatatattcagg-attgtgcgtaatt---tta-atccttcatacctaaaaa-atctattcgatt----ttttattttatttttttatt------ttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
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gtattgtacttcatttctgtttttctgtttctatttgatacctgtattaata-tattattttaaatttgagtcttttcttgttgcatatagttcccttatacattttcttcttaaaggtatcccttaggtggggactgcactttctctttcttttagataacattgtttaaaaatctttcaagGTTGTGGCTATTGCAACTTCCGCACTAGAAGGGTTTAAGAATGAATCGAAGAAAATGGTTGTTGCACTCGTTGATATGGAGCGTGCTTTTGTCCCACCTC
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatattttctttgattgcgcacctgttcttgtgctggcagtatttatttatatattcaggattgtgcgtaattttaatccttcatacctaaaaaatctattcgattttttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
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----------------------------------------------------------gtaataatgatt--ttttggtgctttattcagtaatattttatca---tttcggtaacagttattcctttctgactaatcatca--accagGTTGTAGCTATAGCAAGTGCAGCACTTGATGGTTTCAAGAATGAAGCCAAGAAAATGGTGGTTGCACTAGTTGATATGGAACGCGCTTTTGTACCACCTC
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatattttctttgattgcgcacctgttcttgtgctggcagtatttatttatatattcaggattgtgcgtaattttaatccttcatacctaaaaaatctattcgattttttattt-tatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
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--------------------------------------------------------------------gtaattatgcttttactgctctttcagttgcatttttcgtcttactaatagctgtttcttttcttaaataatcgtcaaccagGTTGTAGCTATAGCAAGTGCCGCACTTGATGGATTCAAGAATGAAGCTAAGAAGATGGTAGTTGCATTAGTTGATATGGAGCGTGCATTTGTACCACCTC
upper sequence: Vv18s0089g00350.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S426_19V6.1 (Physcomitrella patens), 3'ss of exon 11
gtatattttctttgattgcgcacctgtt--cttgtgctggcagtatttatttatatattcaggattgtgcgtaattttaatccttcatacctaaaaaatctattcgattttttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
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-------------------gtacttgtttgcttgttctagttgtttctctgca-atggtgcttttcatcggtcatttca-tagtgtgctctttttatgt-tatatgatttcatatctcaggctactaatta--ggccgttatgtctttcagATTGTATCAATCGCCAGTGCAGCTCTGGAAGAGTACAGAGTTGAAGCCAAGAAAATGGCTGTTGCCCTAGTTGATATGGAGCGCGTATTTATTCCACCGCMapped 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|161717164|gb|FC065927.1|FC065927EST: CTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAG GTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAG
genomic: CTGCAAATGCTACGCCAGGTCTGGGGAGATATCCTCCTTTCAAGAGAGAGgtatattttc ... tttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatctattcgattttttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
ttttttattttatttt CT-rich tract
attttttattttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattttctttgattgcgcacctgttcttgtgctggcagtatttatttatatattcaggattgtgcgtaattttaatccttcatacctaaaaaatctattcgattttttattttatttttttattttttattttttatttttattagGTTGTGGCAATTGCAACTGCTGCACTAGATGTGTTCAAGAATGAAGCTAAGAAAATGGTGGTTGCCCTAGTGGATATGGAGCGAGCTTTTGTGCCCCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT