Sequence
atgc intronic sequence ATGC exonic sequence...tgcaatagatcactgcatgttattatgtttgaccacatggttcagtttactcaactttagtttgaacatagttttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 7
-------tgcaatagatcactgcatgttattatgtttgaccacatggttcagtttactcaactttagtttgaacatagttttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
||| | | || | | ||| | ||| | ||| | | || ||| ||||| | || ||| || || | | ||||||||||||||||||||| ||||| ||||||||| |||| || |||||||| ||||||||||| | ||| | ||||| |||| ||||| | ||||||
agatttagaaaattggcttgattcttttttcttatttagtttctaggtaatgggcactta--tatatcttgcacataatccttaaattcattcttatgt-----tagGGTTGTTGAAATGCAAGAGATCCTAGATCAACAAGTTGCAGAAGAAGCAGCTGAGGCTGAGGGTGCAGGTGCTATGGCGACAATAGCAAACCAGCGTAGA
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------tgcaatagatcac-tgcatgttattatgt-ttgaccacatggttcagtttactcaactttagtttgaacatagttttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
| | || | | || ||||| | | || | || || | | ||| |||| || | | |||| || || | | | | |||||||||||||||||||| ||| | ||||||||| |||| || |||||||| ||||||||||| | || | ||||| |||| |||| | ||||||
gtacatctcattcttcaatttttgctttaatataaaattgtcaatgaatatattttccaaataaaatttattttattttctattaggtatatatcatggtattcacaaatttacatt-attgcatcaattttgtttttggactatacatc--agGGTTGTTGAAATGCAAGAGATCTTAGATCAACAAGTTGCAGAAGAAGCAGCTGAGGCTGAGGGTGCTGGTGCTATGGCGACAATAACAAACCAACGTAGA
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 9
-------------------------------------------------------------------------------------------tgcaatagatca-ctgcatg-ttattatgtttgaccacatggttcagtttactcaacttta-gtttgaacatagtttt-ttttttctttgttttctct-ttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
| | ||| || ||| ||| | | | | || ||| || | | |||| || || | || |||| ||||||||| | || ||||||||||||||||||||||||||||||||||| |||| || |||||||| |||||||| || | || | ||||||||| |||||||||||||||
gtatgttgttgatagtcaattgcactttttttttcccagtcagttcattcccttcatcttgttttagatggtaggttggatgattggaaattctagatgataggttggatgattaaaaattctaatcagccggtagaggagtttaatctttctaaaaaaatgtaatcttattttccctttgtttttcatattccagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAGATTGCAGAAGAAGCAGCTGAGGCTGAAGGGGATGGCGCAATGGCATCAGTTGCAAATCCTCGTAAC
upper sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G71820.1 (Arabidopsis thaliana), 3'ss of exon 9
tgcaatagatcactgcatgttattatgtttgaccacatggttcagttta--ctcaact--ttagtttgaacatagttttttttttctttgttttctct-ttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
|| | | | | | | | | | | | |||| | |||| ||| | |||| | ||| | |||| ||| | ||||||||||| ||||||||||| || || ||||| |||||||| |||||||| ||||||||||||| ||| | |||||||| | ||||||||||| ||
---aacacaaagtctcctatccagaaga--aaatgagtagactaatttaaagtgaactagttaactagaactggtactaactttcaatggtttattctatcaaagGGTTGTTGAGATGCAAGAAATTCTAGACCAACAGCTTGCTGAAGAAGCAGCAGAGGCTGAGGGAGAAGGTGCGATGGCATCTGTAGCAAATCCTCGAAGGMapped 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|161717701|gb|FC068541.1|FC068541EST: TCCACAAACTCTGGTTCGTGCTTTGAG GGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGC
genomic: TCCACAAACTCTGGTTCGTGCTTTGAGgtatgttgct ... ctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttactcaactttagtttgaacatagttttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
catagttttttttttc CT-rich tract
atagttttttttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcaatagatcactgcatgttattatgtttgaccacatggttcagtttactcaactttagtttgaacatagttttttttttctttgttttctctttgtagGGTTGTTGAAATGCAAGAAATCCTTGATCAACAACTTGCTGAGGAAGCAGCCGAGGCTGAGGGAGGAGGGACCATGGCATCAATTGCAAATCCTCGTAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - cactgca
- - - - - - - - - - - - - - - - ccacatg
- - - - - - - - - - - - - - - - - - - - - - - - actcaac