Sequence
atgc intronic sequence ATGC exonic sequence...acaaatcatgctacgaatgaaatattattattagtctcttctgacatttgtacacttatagtatgatctcatggaatgtttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g14514.3 (Oryza sativa), 3'ss of exon 7
----------acaaatcatgctacgaatgaaatattattattagtct-cttctgacatttgtacacttatagtatgatctcatggaatgtttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
| ||| | | | | | || ||| | | | ||| ||| | ||| | || || ||| || | | | | | | ||||||||| |||| | || ||||||||||||||| | ||||||||||||||||||||||| |||||| || | ||| || || || |
gtaagttcccatttctcagtattctagcatattgttcatatggatgtatctatgatattgcatcgcttttgtcattatagaatgaaag--tgaccatctaaatttgagcagGTTTTGTCAGACCCCGAACATTGCTATTGTGTGATTCTCAATGCACATGATGGGGCAGCTTTTCCTGAAGACACTGAATCGAAGAATGCCAGCTCAAATC
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os04g10420.1 (Oryza sativa), 3'ss of exon 7
----------------------------------------------------acaaatcatgc--tacgaatgaaatattattattagtctcttctga-------catttgtacact-tatagtatgatctcatggaatg--tttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
|||| | || || | ||| | ||| |||| | || | | ||| | || ||| ||||| | | | | || | | || || | | || |||||||| |||| | || |||||||| ||||| | |||||||||||||||||||||||||||||| | | ||| || ||| || |
gtaagttcccatttaattccccctagtagaagagatagtgttcagcgttctaacaagtgttgtcatatggatgtatctttaatattgcattgttttcattgttttcatatatatactctataggaaaaccctaatgattaacgtggtcattcaaattttagCAGGTTTTATCAGACCCTGAACATTGCTACTGTGTTATTCTCAATGCACATGATGGGGCAGCATTTCCTGAAAACACTGAATCGAAAAATCCTAGCTCAA---
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G041613_T02 (Zea mays), 3'ss of exon 7
--------------------acaaat---catgctacgaatg-aaatattattattagtctcttctgacatttgtacacttatagta--tgatctcatggaatg----tttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
|||| ||| || || | || | | ||| | | || ||| | | | || | | ||| | | || ||| ||||| | | ||||||||| |||| | || || |||||||||||| | || || ||||||||||||||||||||||| |||| | || | ||| | |
gtaatatgaatgttgtaattgtaaatgcccattctctgatggtgcatgatttctttattgtttttcatcatgttcatagttcctgaagttgaccctgttgagcactgtttttttcttcaaattcaagcagGTTTTGTCAGATCCTGAACACTGCTATTGTGTGATTCTTAACGCACATGATGGGGCAGCATTTCCCGAAGAAAGTGAGTGCAAGAATCCTGTTTCAAATA
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G041613_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------------------acaaat---catgctacgaatg-aaatattattattagtctcttctgacatttgtacacttatagta--tgatctcatggaatg----tttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
|||| ||| || || | || | | ||| | | || ||| | | | || | | ||| | | || ||| ||||| | | ||||||||| |||| | || || |||||||||||| | || || ||||||||||||||||||||||| |||| | || | ||| | |
gtaaggttctgtgcaattatatcaaagttgtagttgtacaacattctgtccaggtaatatgaatgttgtaattgtaaatgcccattctctgatggtgcatgatttctttattgtttttcatcatgttcatagttcctgaagttgaccctgttgagcactgtttttttcttcaaattcaagcagGTTTTGTCAGATCCTGAACACTGCTATTGTGTGATTCTTAACGCACATGATGGGGCAGCATTTCCCGAAGAAAGTGAGTGCAAGAATCCTGTTTCAAATA
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G05100.1 (Glycine max), 3'ss of exon 7
---acaaatcatgctacgaat-gaaatattatt-attagtctcttctgacatttgtacacttatagtatgatctcatggaatgtttgttcttttattcttct-cagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
| || || || || |||| || | || | | | | | | || || | || | | | || || ||||||| || ||||||||||| |||| ||| |||||||||||||| | || |||||||||||||||||||||||||| |||||||| || |||||||||| ||||
cttgccccatatattaggagcagacatatcatggaatactttatcattatgatcgtgatctcttcataaagt------aagtcttggtgattttatttccctgcagGTTTTGACTGAAAAAGATCATTGCTATTGTGTAGTTCTAAATGCACATGATGGGGCAGCATTTCCGAGTGAAAAGGTGTCCAATGATTGTAGTACTAGTG
upper sequence: Vv18s0001g08720.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G05020.1 (Glycine max), 3'ss of exon 7
----acaaatcatgctacgaatgaaatattatt-attagtctcttctgacatttgtacacttatagtatgatctcatggaatgtttgttcttttattcttct-cagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
| || | || |||| ||| | |||| | | | | |||| || | || | | | || || ||||||| || ||||||||||| |||| ||| |||||||||||||| | || || ||||||||||||||||||||||| |||||||| | |||||||||| |||
acttgccccatatacaggagtagacatatcattgaatagtttatcattatggttgtgatctcttcataaagt------aagtcttggtgattttatttccctgcagGTTTTGACTGAAAAAGATCATTGCTATTGTGTAGTTCTTAACGCACATGATGGGGCAGCATTTCCGAGTGAAAAGGTGGCCAATGATTGTAGTACTA---Mapped 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|77586421|gb|DV222336.1|DV222336EST: CAGATATATGTTTTGCAGTTGATGATTTCGATTCCACCTTTGATGCAGTG GTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGAT
genomic: CAGATATATGTTTTGCAGTTGATGATTTCGATTCCACCTTTGATGCAGTGgtaatgtagt ... ttcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGAT
EST:
gi|110714422|gb|EE091311.1|EE091311EST: CAGATATATGTTTTGCAGTTGATGATTTCGATTCCACCTTTGATGCAGTG GTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGAT
genomic: CAGATATATGTTTTGCAGTTGATGATTTCGATTCCACCTTTGATGCAGTGgtaatgtagt ... ttcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtacacttatagtatgatctcatggaatgtttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
tgtttgttcttttatt CT-rich tract
tttgttcttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaaatcatgctacgaatgaaatattattattagtctcttctgacatttgtacacttatagtatgatctcatggaatgtttgttcttttattcttctcagGTTTTGACAGAAACAGACCATTGCTATTGTGTGCTCCTCAATGCACATGATGGGGCAGCATTTCCTAGTGAAAAAACATCACCTGATTGTAGTTCTAGCA
- - -tcatgct
- - - - - - - -aatgaaa
- - - - - - - - - - - - - - - - - - - - ctgacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcatgg