Sequence
atgc intronic sequence ATGC exonic sequence...aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 5
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccct----catt--gggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
| || || ||| | || | | |||| ||| | | | | | || | | | | | || | |||| |||| ||| ||||||||||||| || | | || ||||||| || ||||| ||||||||||||| || ||||||||||| ||||| |||||||| || ||||||||||
---atttaattaatttttattt---agcttcttttagtgcacttgaaagatgacaatatttaattctactgaatgtggcagtcaaaccttttagttttattttcagGGAAACAGTCTACTTCGGGCACTGAATGTTGCTGCCTTTGCAATTTCTGGATATGCATCATCTGAAGGTCGTCATTGTAAACCCTTTAATCCATTGTTAG
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 5
aatgctaaaatattttgtgattg---ttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcct-ttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
| || |||||| | || | | | | || | | || | || || | | | | | || |||| ||| |||||||||||||||| | | || ||||||| || ||||| ||||||||||||| || ||||||||||| ||||| |||||||| || ||||||||||
----tttaattattttttatttagcctcctatagttcagttgaaagatgacattgtttaatgctattgaatgtggcagttcaaacctttgagttttattttcagGGAAACAGTCTCCTTCGGGCACTGAATGTTGCTGCCTTTGCAATTTCTGGATATGCATCATCTGAAGGTCGTCATTGTAAACCCTTTAATCCATTGTTAG
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 4
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatct-tcatgaaatc-tgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
| | || | | ||| | |||| | ||| | | | || | || | || | |||| || || ||| | | ||| |||||||| ||||||| | | || ||||||| || ||||| ||||| ||||||||||| ||||||||||| |||| |||||||| || || || ||||
ttcgatgaatttgtatgtaacaattaagtat-tttgtggtataaggattaatgataatattattgtatttgatagtc-ttacccttcgaataatttttgcagGGAAACGGTCTCCTTCGGGCACTTTATGTTGCTGCCTTTGCAGTTTCCGGATATGCGTCATCTGAAGGTCGTAATTGTAAACCCTTTAATCCTTTATTAG
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G03420.2 (Glycine max), 3'ss of exon 6
--aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
||| ||| || || | || | ||| || | || || | | | | | | ||| || | || || ||| |||||||| ||||||| | | | ||||||| || ||||| ||||| ||||||||||| ||||||||||| |||| |||||||| || || || ||||
taaattctataaatttgtatg--taacaaatgagtattttgtggtagaaggattaatgataatattgtatttgatagttttaccctttgaattattttgcagGGAAACGGTCTCCTTCGGGCATTGTATGTTGCCGCATTTGCAGTTTCCGGATATGCGTCATCTGAAGGTCGTAATTGTAAACCCTTTAATCCTTTATTAG
upper sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G22540.1 (Arabidopsis thaliana), 3'ss of exon 4
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
| |||| |||| | ||||| | | | || | | |||| | || | | || | |||| || ||||| |||||| || ||||||| ||||||||||| ||||||||||| ||| ||||||| ||||||| || |||||||| || ||| | |
------------gtaagtgac-accaaagtctcttacttatcttgtacattactacattctgtttatcttatattgacttaaagcctattggataatcagGGGAATGGTCTCTTAAGAGCCTTAAATGTTGCTGCTTTTGCGGTCTCTGGATATGCTTCCACTGAAGGCAGGCATTGTAAGCCCTTCAATCCTTTGCTTGMapped 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|110700214|gb|EE077994.1|EE077994EST: ACTTGGAGTACTCTTATCTTTTGGATCGAGCGTATGAATATGGAAAAGCG CGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGA
genomic: ACTTGGAGTACTCTTATCTTTTGGATCGAGCATATGAATATGGAAAAGCGgtatgcatat ... ttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
atctgac putative branch site (score: 3)
tttttccctcattggg CT-rich tract
tttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgctaaaatattttgtgattgttaaagacgtttactgctttaacatcttcatgaaatctgacatttttccctcattgggctttcctttttgtttctagGGAAACAGTCTCCTAAGAGTTCTACATGTTGCAGCTTTTGCGGTTTCTGGATATGCGTCCTCTGAAGGTCGGCATTGCAAACCCTTCAACCCATTGTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - aaaatat
- - - - - - - - - - - - - - - - - tactgct
- - - - - - - - - - - - - - - - - - - - - - - - cttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctttcc