Sequence
atgc intronic sequence ATGC exonic sequence...gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g45460.1 (Oryza sativa), 3'ss of exon 2
--gtgcatcatagtat-gtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
| | || | || |||| ||| | | || | | || ||| | || || | | | || ||| || | | ||||| ||||||||||||||||||||| || ||||| ||||| | |||||||| || ||||| ||||| ||
aacctgaccctaacacagtttcagaaaagaatatg--gcatgtctgatttctcttcctaattaccctacaacgtt-ctaaaacagtcctttcttggttcacagTTGGATATTACTATTTCTTCTCAAGTCAGGTTCGTAGAAGTATAGTCTATGGAGAACAACCAAGAAACAG
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g49440.1 (Oryza sativa), 3'ss of exon 2
gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaac--ttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
| | ||| | | || || ||| | ||| | | | | | ||| | | || || | | || | | ||| ||||| |||||| ||||||||||| ||||||||| | |||||||||| ||||| || ||||| ||||| ||
ctcctagccagttttcaaaaggaaaaacaaatttcattaccacagaaagtgtttaa-cagaatggagatg-gccttgactcttttttttttctttaatacagTTGTATATTATTATTTCTTCTCGAGCCAAGTTTGTAGAAGTGTTGTATATGGAGAACAACCAAGAAACAG
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G473976_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgt-taacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
| || |||| ||| | || | | || | ||| | | | || | | | | || | ||| || | || ||||| ||||||||||||||| || |||||||| || ||||||| |||||||| || ||||||||||| ||
gtacattgaagcctacctgttaacagagtatgatatgttgttttaatatataaattttagtttgtcttgaagggaccttatgattatgactcctttgacaggaatattatatcttgtttaatttctgaaacatcttttctttgtttacagTTGGATATTACTATTTCTTTTCGAGCCAAGTGCGTAGAAGTGTAGTCTATGGAGACCAACCCAGAAACAG
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G439203_T01 (Zea mays), 3'ss of exon 2
-------gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
||| || | | || ||| |||| | | |||| | | | | |||| | | | | || ||| | ||||| |||||| ||||||||||| |||||||||| |||||||||| ||||| ||||| || ||||| ||
gttggcgttgctccagatttgccattgttttcttatctgcttagaattgtactcatacactgcacctgactgtgctactaccttaatggatt-ttgctctactccagTTGTATATTATTATTTCTTCTCTAGCCAAGTTCATAGAAGTGTTGTATATGGAGATCAGCCAAGAAACAG
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G05450.1 (Glycine max), 3'ss of exon 2
--gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgt-ctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
||| | | | | | |||| | | || | ||| || | ||||||| | || || || | ||||| | | | |||||||||||||||||||||| ||||| |||| |||||| |||| ||||| ||||| || ||||| ||
aggtgtagaaatcttcacacaaatttgtatacagcaacat-taatagaaaa--tggatcttttgtttatttgttttctctctcttactgttgactttctgcagTTGCATATTACTATTTCTTCACAAGCAAAGTAAAGCGAAGCATTGTTTATGGAGATCAGCCTAGAAACAG
upper sequence: Vv14s0006g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G05840.1 (Glycine max), 3'ss of exon 2
gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgt-ctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
| | | | | | |||| | | || | ||| || | ||||||| | || || || | ||||| | | | |||||||||||||||||||||| ||||| |||| |||||| |||| ||||| ||||| || ||||| ||
--gtagaaatcttcacacaaatttgtatacagcaacat-taatagaaaa--tggatcttttgtttatttgttttctctctcttactgttgactttctgcagTTGCATATTACTATTTCTTCACAAGCAAAGTAAAGCGAAGCATTGTTTATGGAGATCAGCCTAGAAACAGMapped 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|110372561|gb|EC936739.1|EC936739EST: TGTTGCCCTTGGTTGTTATGCCATGCTACTAATGCCAGGGTTTCTTCGAG TTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATG
genomic: TGTTGCCCTTGGTTGTTATGCCATGCTACTAATGCCAGGGTTTCTTCGAGgtgtgtattg ... tctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgccttgcaggttttgttaacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
ttttgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcatcatagtatgtatcagtttgaaatcttttacgtgccatacttgccttgcaggttttgttaacatgcaacctaacttgtctgttaatctgatatagTTGCATATTACTATTTCTTCTCAAGCCAAGTTCGGCGAAGTGTTGTCTATGGTGATCAACCCAGAAATAG
-tgcatca
- - - - - - - - - - - - - - - - -tacgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtctgt