Sequence
atgc intronic sequence ATGC exonic sequencegtacccctttggatctattatttcttgatcattctcaattttctacatcataattcatcatgcatccccgatccaatttatttcctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 3
-------------------------------gtacccctttggatctattatttcttgatcattctcaattttctacatcataattcatcatgcatccccgatccaatttatttcctttttgt-agGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| || ||| | | ||||||| ||| || ||||| | | | | | || | || || || | | | ||| |||||||||||||| |||||||| ||||| || || ||||| |||||||| ||| | || || || | || ||||||||||| | || ||||| ||
gtcagttgggagagctgcctccgttagaattgaacatcttaacttgagatgtttcttg--catgctgaatttgttg----acagagcggagtatattgaaactgaaactttttggatatacatcagGTACCTTTGGTCAGGTATTGGAATGTTGGGATAGGGAAAGGAAAGAAATGGTGGCCATTAAGATCATCAGAGGCATTAAGAAGTACAGGGATGCTGCAAT
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G02740.1 (Glycine max), 3'ss of exon 2
----------------------------gtacccctttggatc-tattatttcttgatcattctcaattttctacatc-ataatt-catcatgcatccccgatccaatttatttcc---tttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| |||| || ||| || || || | | ||| || |||||| | | ||| || || | | || |||||| ||||| ||||| || ||||||||||| ||||| |||||||||||||||||||| ||||||||||||||
gtaaggtgaaaaacattttgggaatcatatgtttaaatggacagtagaattcactgtgttggctaggcttgcattgttgatacttatatcatgt-ttgcagATAAGATCCATACCAAAATGGGTGAAGGAACTTTTGGGCAGGTCTTAGAATGCTGGGATAGAGAAAGGAAGGAAATGGTTGCCGTAAAAATTGTCCGTGG---------------------------
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G13440.1 (Glycine max), 3'ss of exon 2
------------------------------gtacccctttggatctattatttcttgatcattctcaattttctacatcataattcatcatgcatcccc-gatccaatttatttcc---tttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| | || | || | | | | | | | | ||| | | | | | ||| | | ||| || || | | || |||||| ||||| ||||| || ||||||||||| ||||| |||||||||||||||||||| ||||||||||||||
tgaaaaacatttttggaattatatgttcaaatggacattagaattcactgtgt-tggctaggcttgcattgttgatacttttttccatatcatgtttgcagATAAGATACATAGCAAAATGGGTGAAGGAACTTTTGGGCAGGTCTTAGAATGCTGGGATAGAGAAAGGAAGGAAATGGTTGCCGTAAAAATTGTCCGTGG---------------------------
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G36360.1 (Glycine max), 3'ss of exon 2
--------------------------gtacccctttggatctattattt--cttgatcattctcaattttctacatcataattcatc-atgc-atccccgatccaatttatttcc---tttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| | ||||||| | || || || | | | | | | | ||| || | ||| || || | | |||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||||||| | ||||||||||||||
atgtagaaccattttgggcgttggatgctctaaaatggatcttgtggttggtttcattggctaggctggcattatttacactctgttgatgtgattacagATAAGATCCATAGTAAAATGGGCGAAGGAACTTTTGGGCAGGTCTTGGAGTGCTGGGACAGAGAAAGGAAGGAAATGGTTGCCATAAAAATTGTCCGTGG---------------------------
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 2
--------------------------gtacccctttggatctattattt--cttgatcattctcaattttctacatcataattcatc-atgc-atccccgatccaatttatttcc---tttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| | ||||||| | || || || || | | | | | | | ||| || | ||| ||| || | | | |||||| ||||| ||||| ||||| |||||||||||||| |||||||||||||| ||| | |||||||| |||||
atgtagaatcattttggggattggatgctctaaaatggatcttgtggttggtttcattggctaggcttgcattatttacactccgttgatgtgattacagATAAGATTCATGGCAAAATGGGCGAAGGAACTTTTGGGCAGGTCTTGGAGTGCTGGGACAGAGAAAGGAAGGAAATGGTCGCCATAAAAATTGTTCGTGG---------------------------
upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacccctttggatctattatttcttgatcattctcaattttctacatcataattcatcatgcatccccgatccaatttatttcctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
| || || ||| || | | | | | ||| || || | | || | | | ||| | |||| | || ||||| || |||||||| || | ||||| ||||| || ||||||||||||||||| || || ||||||||||||||| | ||||| || ||||||||||| ||
------gtatgaatttatggttgttgtacaagtt--attttcataggtccggtgtagttat-cgtatctgatttcctaaattttcctt--gtagGTACTTTTGGTCAAGTGCTAGAATGTTGGGATAGGGAGAGGAAGGAAATGGTGGCAGTAAAAATTGTCCGTGGTGTGAAGAAATACCGTGAGGCTGCTATMapped 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|71858663|gb|DT007718.1|DT007718EST: ATAAGATCAACAGCAAGATGGGCGAAG GAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGG
genomic: ATAAGATCAACAGCAAGATGGGCGAAGgtaccccttt ... ctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGG
EST:
gi|71856051|gb|DT005106.1|DT005106EST: ATAAGATCAACAGCAAGATGGGCGAAG GAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGG
genomic: ATAAGATCAACAGCAAGATGGGCGAAGgtaccccttt ... ctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctacatcataattcatcatgcatccccgatccaatttatttcctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
tttatttcctttttgt CT-rich tract
aatttatttccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacccctttggatctattatttcttgatcattctcaattttctacatcataattcatcatgcatccccgatccaatttatttcctttttgtagGAACCTTTGGTCAGGTTTTGGAATGCTGGGACAGAGAGAGGAAGGAAATGGTTGCCGTCAAAATTGTCCGTGGTATTAAGAAGTATCGTGAGGCTGCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT