Sequence
atgc intronic sequence ATGC exonic sequence...agtagatatcattgcaatgcatctttgctttgtttatctgctatttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G142168_T01 (Zea mays), 3'ss of exon 4
-------------------------------------agtagatatcattgcaatgcatctttgctttgtttatctgct------atttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
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gttagtatttcattttgcaccatcttcttgacatgggaacagagatggttcctacccctggaaaccatatttatttattgagaggatgacttggacatcacaataactaagttttctttggttgtatttttcatttttgctagGTGTTCTGCAAGGCATATAAACAAGTTGATCCTTCTATACATCATAGCATGAGGCATCTTTTTGGAACATGGAAAGGAGTGTTTCCTCTACCTCCTCTCC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G466560_T01 (Zea mays), 3'ss of exon 2
-------------------------------------agtagatatcattgcaat--------gcatctttgctttgtttatctgctatttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| |||| | || |||| || || ||| || | | | | | || |||| || | || |||| || ||| |||||| |||||||||||||||| ||||||||||||||||||||||| | | ||| |||| ||||||||||| |||||||||||||| ||||| | || || |
gttagtatttcatcctgtaacatcttcttgatatgggaatagagacggttccaatctctggaaacaatatttatttattgagaggatgtagcttggacattacaataactaagttctctttggttgtatttttcatttttgctagGTGTTCTGCAAGGCATATAAACAAGTTGATCCTTCTATACATCATAGCATGAGGCACCTTTTTGGAACATGGAAAGGAGTGTTTCCTCTACCTCCGCTCC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G07660.1 (Glycine max), 3'ss of exon 1
agtagatatcattgcaatgcatctttgctttgtttatctgctatttcctgattccactaatatctcactt--tggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| | | | | | ||||| || ||||| | | | | || | | | || | |||| ||| ||| ||| | | ||||||||| ||| ||||| ||||| |||||||||||| | |||| ||||| |||||||||||||||| ||||||||||| || |||| | | ||||
aatgtactcatgtcctgcacgtcttt-ctcaagatatcttgtctgatttttagatgcctatttttaagttggtagtttctaat-tactcctttacattttagGTATTCATCAAAGCATACAGACAGGTTGATCCTTCTGTCCATCAAAGTATGAGGCATCTTTTTGGAACTTGGAAAGGAGTCTTTCCTCCTCAGACCCTTC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G37610.1 (Glycine max), 3'ss of exon 2
agtagatatcattgcaatgcatctttgctttgtttatctgctat----ttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| ||| | || |||||| || || | || ||| || || |||| | | | || ||| | | || ||| ||| | | ||||||||||||||||| || | ||| |||||||||| | | ||| | |||||| |||||||||||||| ||||||||||| || |||| | | ||||
-tgaaatagaaccaatatttccctttgcatttttcgtgtgatatatgttttctaattctat--acacctatttttaactaggtac-tactactttacattttagGTATTCTGCAAGGCTTACAAACAGGTTGATCCTTGTGTTCATTCAAGTATGCAACATCTTTTTGGAACTTGGAAAGGAGTCTTTCCTCCTCAGTCCCTTC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G34910.1 (Glycine max), 3'ss of exon 2
agtagatatcattgcaatgcatctttgctttgtttatctgctat----ttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| || | | |||||| || || | || ||| || || |||| | | | || ||| | | || ||| ||| | | ||||||||||||||||| || ||||| |||||||||| | | ||| | ||||| |||||||||||||| ||||||||||| || |||| | | ||||
-tgaaatggaaccatcttttccctttgcatttttcctgtgatatatgttttctaattctat--acacctatttttaactaggtac-tactactttacattttagGTATTCTGCAAGGCTTACAGACAGGTTGATCCTTGTGTGCATTCAAGTATGAAACATCTTTTTGGAACTTGGAAAGGAGTCTTTCCTCCTCAGTCCCTTC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G37600.1 (Glycine max), 3'ss of exon 1
agtagatatcattgcaatgcatctttgctttgtttatctgctat----ttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| || | | | |||||| || || | ||| || || |||| | | | || ||| | | || ||| ||| | | ||||||||||||||||| || ||||| |||||||||| | | ||| | ||||| |||||||||||||| ||||||||||| || |||| | | ||||
-tgaaatggaaccaaattttccctttgcatttttcctgcaatatatgttttctaattctat--acacctatttttaactaggtac-tactactttacattttagGTATTCTGCAAGGCTTACAGACAGGTTGATCCTTGTGTTCATTCAAGTATGAAACATCTTTTTGGAACTTGGAAAGGAGTCTTTCCTCCTCAGTCCCTTC
upper sequence: Vv08s0007g03880.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G36480.3 (Arabidopsis thaliana), 3'ss of exon 1
agtagatatcattgcaatgcatctttgctttgtttatctgctatttcctgattccactaatatctcactttggtttgtaacctacctttttttactct--agGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
| ||| || | | | || |||| | ||| | | | | || || || || | ||| | |||| | |||| |||| || ||||| || || |||||||| ||| |||| ||| || |||||||||||||||||||| ||||||||||| || | || | ||||||
------gtttggtgctttgt-tgatagtcatggttatagaatgtttttt--tcctagcaa-attcatctctgatc----accctctttttacttctctgaagGTTTTTGTTAAGGCTTACAGGCAAGTTGACCCTCCTATGCATTCTAACATGCGGCATCTTTTTGGAACCTGGAAAGGAGTCTTTCATCCGCAAACACTTCMapped 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|161719345|gb|FC068965.1|FC068965EST: AGAATATTGGAAGAGATTATATCAAATATTTTGCTGCCAGACTGCCTGAG GTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATG
genomic: AGAATATTGGAAGAGATTATATCAAATATTTTGCTGCCAGACTGCCTGAGgttagaattt ... tttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
ttgtaac putative branch site (score: 2)
cctacctttttttact CT-rich tract
tttttttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtagatatcattgcaatgcatctttgctttgtttatctgctatttcctgattccactaatatctcactttggtttgtaacctacctttttttactctagGTATTCTGCAAGGCATATAGACAAGTTGATCCTTCTATACATCCTGGTATGCGGCATCTTTTTGGAACGTGGAAAGGAGTGTTCCCTCTTGCACCACTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - caatgca
- - - - - - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - -ctgctat
- - - - - - - - - - - - - - - - - - - - - - ttcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg