Sequence
atgc intronic sequence ATGC exonic sequence...gttatattctttctcattatgtttgtatgtataagataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G04030.2 (Glycine max), 3'ss of exon 8
gttatattctttctcattatgtttgtatgtataagataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT------------------------------------------------------------
| | |||| | | || || || | |||||||||||||| |||| ||||| ||||| ||||||| | |||||||||||||| ||||||| |||| |||||| |||| | ||||| |||||| |||||
-----------------------------------------------------gtcattca-atatcaagattcaaagt------ttttatttttctcagggaaaaattgaagtgactattgcaggaggaagagttgtttgggaaaataatgaactaaagGTCACTCCTGGCACTGGGAGATACATCCAAATGCCACCTTTTAGTTATCTGTTTGATGGACTGGACAAAAAGGACGCCATTTATCTAAATTCCCTTCAGG
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G04030.1 (Glycine max), 3'ss of exon 12
-----------gttatattct-ttctcattatgtttgtatgtataa-gataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
|||| ||| ||| |||| |||| ||| || | | |||| | | | | | | |||| | | || || || | |||||||||||||| |||| ||||| ||||| ||||||| | |||||||||||||| ||||||| |||| |||||| |||| | ||||| |||||| |||||
gtaccggtttaactataatctgttcattatatgattgtttgtgtattgttcaacaattgaaggcttgtcattca-atatcaagattcaaagt------ttttatttttctcagGGAAAAATTGAAGTGACTATTGCAGGAGGAAGAGTTGTTTGGGAAAATAATGAACTAAAGGTCACTCCTGGCACTGGGAGATACATCCAAATGCCACCTT
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G44690.1 (Glycine max), 3'ss of exon 12
-------------------------------------------gttatattctttctcattatgt--ttgtatgtataa-gataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttat--------gattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
||| | | ||| |||| |||| |||||| | | |||| | | | | | |||| | | || | | || |||||||||||||| |||| ||||| |||| ||||||| | |||||||||||||| ||||||| |||| ||||||| |||| | ||||| |||||| ||| |
gtactggtttaattataatctattccttatgccttgtttgtgtcctatggttctgttcaacatgtggttgtttgtatattgttcaacaattgaagccttggcatgca-atatcaagattcagagtcttttttttctctctctaatttttctcagGGAAAAATTGAAGTGACTATTGTGGGAGGAAGAGTTGTTTGGGAAAATAATGAACTAAAGGTCACTCCTGGAACTGGGAGATACATCCAAATGCCACCGT
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA15G06100.1 (Glycine max), 3'ss of exon 12
gttatattctttctcattatgtt--tgtatgtata-agataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
||| ||| ||| | ||| |||||| || | || | | | | | | || |||| || || ||| | |||| ||||||||| | || ||||| ||||| ||||||| | |||||||||||||| |||||||||||| | |||||| |||| | || ||| |||||| ||| |
cttaagagtccattcaacatgctcttgtttgtatatagttcaataattgaagccttgtcatgta-atatcgatattcaaagtttttggtttt--ttttttcagGGAAAAATCGAAGTGACTATTGCAGGAGGAAGAGTTGTTTGGGAAAATAATGAACTGAAGGTTGCTCCTGGTACTGGCAGATATATAAAAATGCCACCCT
upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 3'ss of exon 12
---gttatattctttct-----cattatgtttgta-tgtataagataaacattga-tattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
| ||| |||| | || | || | || || | |||| | ||| | ||||| | | ||| ||| | | | || ||||| ||||||||||| ||||| |||||||| || |||||| |||||| |||||||| || ||||| || | ||||| || ||| ||||| ||||| |||| ||||
gtaatgataccctttttacaaacaattcgtctttactgatttgtataatctctgagcaatcataac-cttttattttattgg--ggacttgattgttaaa----tctcagGGAAAAGTTGAAGTGACAATAGCAGGAGGACGAATTGTGTGGGAAAACGAGGAACTTAAAGTTGTTCCAAGAAGTGGCAAGTATATAGAGATGCCTCCTTMapped 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|27582296|gb|CB004991.1|CB004991EST: CCCATCACTCTAGATTAGACACAAATGTCTTTGAAGGAAGGAAAGGGAAG GGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGAT
genomic: CCCATCACTCTAGATTAGACACAAATGTCTTTGAAGGAAGGAAAGGGAAGgtaatttggt ... attttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGAT
EST:
gi|30131395|gb|CB916734.1|CB916734EST: CATCACTCTAGATTAGACANCAA-TGTCTTTGAAGGGAAGGAA-GGGAAG GGAAAGGTTGAG
genomic: CATCACTCTAGATTAGACA-CAAATGTCTTTGAAGG-AAGGAAAGGGAAGgtaatttggt ... attttctcagGGAAAGGTTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
cattgat putative branch site (score: 4)
ttttctc putative PPT
atattgcatatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatattctttctcattatgtttgtatgtataagataaacattgatattcatattgcatatatattagggtttgaaaaagaatgttatgattttctcagGGAAAGGTTGAGGTGACAATTGCTGGAGGAAAAATTGTTTGGGAAAATGATGAACTGAAGGCAGTTCCTGGATCTGGAAAGTACATAGAAATGCAACCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - gataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa