Sequence
atgc intronic sequence ATGC exonic sequence...ataacaattacacaggcatatggctaattatgacatttggacatttctctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 12
--------------------------------------------------------------------ataacaattacacaggcatatggct-aattatgacatttggacatttctctaagatga-gtagaact----ttgcaacaacctagtaaaaatatcttg-gatggc--agGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
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gtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactga-atctggtcaacataatgcaaaatcttcattgccatactttcttaattatggtttatgatgacacagGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATGATTTCTGGAGCTTTGACAGATCAGGAAGTACGCAGCGCACGTATAGAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GRMZM2G057504_T01 (Zea mays), 3'ss of exon 8
------------------------------------------------ataacaattacacaggcatatg--gctaat--tatgacatttggacatttc---tctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
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gtatcttttttttgcatcaaatctcatcataatccagattttgctggggccattatcagaagaatatacgaggcagacccttcgacattctgatgccccgattctcttgttattttttttttgtattggtcatgatataatatggccgtc--cagGGCACTGTCGAAGAACGAATGGAGGCTGTGCAGGCTCGAAAGCAGCGAATGATTTCTGGAGCTTTGACTGACCAAGAAGTCCGCACTGCACGTATAGAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA17G05390.1 (Glycine max), 3'ss of exon 19
--------ataacaattacacaggcatatggctaattatgacatttggacatttctctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
|| | || || | || || | || | || | | | || ||| | ||| | ||| | || || ||| || |||||| || || ||||| || ||| |||||||||||| ||||| || |||||||| |||||||||||||||||||||||||| |||| |||| | |||||||
tctgtttggtatctatcaccaaattat-tgaattataaccctggttccaagtgttgttat--tgacttgaatatggca-----tttgttcttatgtctaacattgcagGGGACAGTTGAGGAGAGAATGGAGGCAGTGCAAGCACGTAAACAACGAATGATTTCTGGTGCCTTGACTGATCAAGAAGTTCGAACTGCAAGGATTGAGG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 20
-----ataacaattacacaggcatatggctaattatgacatttggac-atttctctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
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atttggtatctatcaccaaattatgtgaatcttt-taaccttggttccgagtattgttattgacttgaa---tgcagca--tttgctcttgtgtttaacattgcagGGGACAGTTGAGGAGAGAATGGAGGCAGTGCAAGCACGGAAACAACGAATGATTTCTGGTGCCTTGACTGATCAAGAAGTTCGAACTGCAAGGATTGAGG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 19
--------------------------------ataacaattacacaggcatatggctaa-----ttatgacatttggacatttctctaagatgagtagaactttgcaacaaccta---gtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
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gtaccctcttctttctcagcagttagtccccattaaccat-ataaagaccaatcactgaaactattccaaaatcagaaaatgttgtt--gctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGGMapped 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|37187658|gb|CF607011.1|CF607011EST: ATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG GGAACGGTGGAGGAAAAGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATG
genomic: ATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAGgtaacatcat ... tggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATG
EST:
gi|30253459|gb|CB971010.1|CB971010EST: ATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG GGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATG
genomic: ATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAGgtaacatcat ... tggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
tagtaaaaatatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataacaattacacaggcatatggctaattatgacatttggacatttctctaagatgagtagaactttgcaacaacctagtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
ataacaa
- - - - - cacaggc
- - - - - - - - - tatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata