Sequence
atgc intronic sequence ATGC exonic sequence...caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgtaacctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 3'ss of exon 1
----------------------------------------------------caggaataactgaagtagatttcaat-----ttttttgctagtctaatttccttat-gtaacct-----------gttctatatatatacaacaatctgattttctc-tgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| ||| ||| | ||| | | |||||| || | | | || | | ||| | | | | | | | || || | || ||||||||||| ||||||||||| ||||| ||| |||| ||| |||| |||||||| |||||||| || || ||||||||||| ||||| |||||||||||| |
gtaagtatttatagaaatagcgcaatatcctattttatattgtcttatatattggtggtaatgtgttcagagtctaatgtgcatgtactgctagcctgtcctgcacctagtgatttagtgaatgaaagttttttttttttgcctggtggtaatcttgtgatgtgactcagGAATGGCGCACAAAAGCTGCTGGGTATCTTGATTGCTATTGGGGAAGCTGTGGCATATGTGCTGTCTGGAATGTATGGTAGTGTGAGCCAACTTGGAACT
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------------------------------------caggaataactgaagtagatttcaatttttttgctagtct----aatttccttatgtaacctgttctatatatatacaacaatc-tgattttctc-tgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| || | | | | |||| |||| | || || | | | | | |||| | | | | | | || || | || || |||||||| |||||||| | ||||||||| |||| ||| |||| |||||||| |||||||| || || ||||||||||||||||| |||||||||||| |
gtaagtatttatagaaataacacaatctcctatttattggtggataacatgttcagagtctagtgtgcatgtactgctagccagtcttctacctagtgttttagctaacatcagaaaattgcagagcttccttattctttttctttctcctggtggtaatcttttgatgtgacttagGAATGGCGCACAAAAATTGCTGGGCATCTTGATTGCTATTGGGGAAGCTGTGGCATATGTGCTGTCTGGAATGTATGGCAGTGTAAGCCAACTTGGAACT
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 3'ss of exon 2
-----------------------------------------------------------------------------------------------------cag-gaataactgaagtagatttcaatttttttgctagtctaatttccttatgtaacctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
||| |||| || | |||| ||| | | | ||| ||| | | | | || | ||||| | || || | || | | ||||||||| ||||||||| |||| || |||||||| || |||| |||||||| ||||||||| | || ||||||||||||||||| ||||| |||||| |
gtaagtattatgagattaacactatgttctttactattacctgaaccttgaaacttagtgccttatttactatggtctgctgtttgtagcccaccatatttcagcgaatggcta---ttgatta-aatgctactacgtatctgattcatgtttaccatgtcttttgattatatttgttacgctaatgtacttttttacccagGAATGGCGCACAAAAGTTACTTGGTATCCTGATTGCAATTGGGGAAGCTGTGGCATATGTTTTGTCTGGAATGTATGGCAGTGTAAGCCAGCTTGGAACT
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G073498_T02 (Zea mays), 3'ss of exon 1
---------------------------------------------------------------caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgtaacctgt-----tctatatatatacaacaatctgattttctctgcct--ctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| | ||| ||| | | | ||| ||| || | | | ||| | | | || | || || || | || | | ||||||||||||||||||||| | || || |||||||| ||| |||| |||||||| |||||||| || || ||||||||||||||||| ||||||||||||
gtaagtgttgtcttattaaaaataatgtaaccttcaatttatcacaattctaactgttggtggttgtttcatctgcagtctttctgtagcatttctctatcatagtctgtcaaagtagattataaaccttctgatttgtattgtgatgcacattgcacttctttactcagGAATGGTGCACAAAAGTTGCTTGGTATCCTGATTGCTATTGGGGAAGCTGTGGCATATGTCCTGTCTGGAATGTATGGCAGTGTAAGCCAACTTGGAACA
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G130987_T02 (Zea mays), 3'ss of exon 2
-------------------------------------------caggaataactgaagtagatttcaatttt-tttgctagtctaattt-----ccttatgtaacctgttctatatat--atacaacaatctgattttctctgcct--ctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
|| ||| | || | | || || | ||| | || || |||| || | || |||||| || || || | | | | ||||||||||||||||||||| | || || ||| |||| ||| |||| |||||||| |||||||| || || ||||||||||| ||||| ||||||||||||
gtaagtgttgtctttctaaaaatattgtgatcttcaattatcacaattctaatcgtagcatttctctatcaagtctgccatagtagattataaaccttctgatctgtatttaatatatttgtattgtgatgcacattgcatttctttactcagGAATGGTGCACAAAAGTTGCTTGGTATCTTGATCGCTATTGGGGAAGCTGTGGCATATGTCCTGTCTGGAATGTATGGTAGTGTAAGCCAACTTGGAACA
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G073498_T03 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgtaacctgt-----tctatatatatacaacaatctgattttctctgcct--ctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| | ||| ||| | | | ||| ||| || | | | ||| | | | || | || || || | || | | ||||||||||||||||||||| | || || |||||||| ||| |||| |||||||| |||||||| || || |||||||||||||||
gtaagtgttgtcttattaaaaataatgtaaccttcaatttatcacaattctaactgttggtggttgtttcatctgcagtctttctgtagcatttctctatcatagtctgtcaaagtagattataaaccttctgatttgtattgtgatgcacattgcacttctttactcagGAATGGTGCACAAAAGTTGCTTGGTATCCTGATTGCTATTGGGGAAGCTGTGGCATATGTCCTGTCTGGAATGTATGGCAGT------------------
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G307252_T02 (Zea mays), 3'ss of exon 1
------caggaat-aactgaagt--agatttcaatttttttgctagtctaatttccttatgtaacctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| ||| ||||| | ||| | | ||| | | ||| ||| | | ||| || | | | | | |||| | ||| |||||||| || ||| | || || ||||| || || |||| ||||| || || ||||||||||| ||||||||||||||||| |||||||||||| |
tccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttc---atgtgattcatagtgtactttttacc------cagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACT
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G130987_T04 (Zea mays), 3'ss of exon 1
-------------------------------------------caggaataactgaagtagatttcaatttt-tttgctagtctaattt-----ccttatgtaacctgttctatatat--atacaacaatctgattttctctgcct--ctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
|| ||| | || | | || || | ||| | || || |||| || | || |||||| || || || | | | | ||||||||||||||||||||| | || || ||| |||| ||| |||| |||||||| |||||||| || || ||||||||||| |||
gtaagtgttgtctttctaaaaatattgtgatcttcaattatcacaattctaatcgtagcatttctctatcaagtctgccatagtagattataaaccttctgatctgtatttaatatatttgtattgtgatgcacattgcatttctttactcagGAATGGTGCACAAAAGTTGCTTGGTATCTTGATCGCTATTGGGGAAGCTGTGGCATATGTCCTGTCTGGAATGTATGGTAGT------------------
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G307252_T01 (Zea mays), 3'ss of exon 2
----------------------------------------caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgt------aacctgttctatatatatacaacaatctgattttctc---------------tgcctct----cagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
| | || | | || || |||| | | | | | || | || || | | | ||| | ||||| | || || | | | | ||| |||||||| || ||| | || || ||||| || || |||| ||||| || || ||||||||||| ||||||||||||||||| |||||||||||| |
gtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccagAAATGGTGCGCAGAAGTTGCTTGGTATCCTTATTGCCATTGGAGAAGCCGTGGCGTATGTTCTCTCTGGAATGTATGGCAGTGTGAGCCAACTTGGAACTMapped 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|110720751|gb|EE096945.1|EE096945EST: TCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTT GAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGT
genomic: TCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcc ... tgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttatgtaacctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
ttttctctgcctctc CT-rich tract
tatatatatacaacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caggaataactgaagtagatttcaatttttttgctagtctaatttccttatgtaacctgttctatatatatacaacaatctgattttctctgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGTTGCATATGTTCTCTCAGGAATGTATGGCAGTGTTAGCCAACTTGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- ggaataa
- - - - - - - - - - - - - - - ttgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaacaa