Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os10g30750.1 (Oryza sativa), 3'ss of exon 6
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatc--ctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
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-----------------------------------------------------------------------------------------------------gtgattaagctta-aaccaaaaatttgta---ttggtttttcatgcatttactaattactaataataaccattctccagATTGCTCCCACTATATTTCCCTCGGGACAGGCAAGAGGAAGAGATTGCGGTATCAAAACTTCCAGCCGATGTTGGGGATGAGAATGGTGAAACAGTAATT
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g05660.1 (Oryza sativa), 3'ss of exon 6
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
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--------------------------------------------------------------------------gtacttagactaacacccacttatgctag----------ctaaatatgataaatttcttataaaggttgaca----------acattgcatttt------gcagATTGCTTCCCCTATATTTCCCTCGGGACAAGAAAGAGGAAGAGATTGCTTCATTGAAACTTCCAGCTGATGTTGGGGATGAGAATGGTGAAACAATAATA
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G06730.1 (Glycine max), 3'ss of exon 7
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatg-attttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
| ||||| | |||||| ||| | | |||| | | |||| ||||| | | | | ||||||| ||| |||| || | ||| | | | || | || ||| | |||| | || | ||| || ||||||||||| || || |||||||||||||| || |||||| |||| |||||||||||||||||||||| || |||||||||||||| || |||||
-------------gtaatttgtttc--tctgttattgacatctgcagtgctttatatgaaa-----taggt---ttgtt--------aaaagtaaacttgttttattttcttttcaattttggactttgtattactta--ttcgctg---ttacc---ttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAAGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTCGGAGATGAGAATGGTGAGACTGTCATA
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 7
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatg-attttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
| ||||| ||||||| ||| | | |||| | || | | | ||||| | | | || ||||||| ||| || | || | ||| | | | || || ||| | |||| | || | ||| || ||||||||||| || || |||||||||||||| || |||||| |||| |||||||||||||||||||||| || |||||||||||||| || |||||
-------------gtaatttgttt--ttctgttattgacatctgcagtgctttat--atgaaata------aacttgtc--------aaaagtaaatttcttttattttcttttcaactttggactttgtattactta--ttcactg---ttacc---ttttatataatttccatgtagGTTGCTTCCACTCTACTTCCCTCGGGATAAACAGGAGGAGGAGATGGCTTTGTCAAAGCTTCCTGCAGATGTTGGAGATGAGAATGGTGAGACTGTCATA
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 7
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
||| || | |||||||| | || || |||| | | | |||||| | | ||| | || | | || | | |||| || ||| || | | |||| | | ||| || ||| | ||||| || || ||| || ||||||||||| || |||||||||||||||||||| ||| |||| || |||| || |||||||||||||| |||||||| |||||||| |||||| |
gta-gtttaagcatttgtttgt-----tttgatgatgatatctgcaa-atgttttgagtaacttg--aacttccaatagttacataagttaggttgat----tttcttttcagacaacctttagactttgtattaattatttattatttttacc---ttttgtattattc--atgaagGTTGCTTCCACTGTACTTTCCTCGGGATAAACATGAGGAGCAGGTTGCTTTGTCTAAACTTCCTGCAGATGTTGGGGATGAAAATGGTGAGACAATCTCA
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G35280.1 (Glycine max), 3'ss of exon 7
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
|||| | | |||||||| | | || |||| | | || | ||||| | | | ||| | || | | | || | || |||| || ||| | || | | | |||| | | ||| || ||| | ||||| || || ||| || |||||||| || || |||||||||||||||||||| ||| | || || |||| || |||||||||||||| |||||||| |||||||| |||||| |
gtat-tttaagcatttgtttgt-----tttcatgatgatatct--gcaaattttttagtaacttg--aacttccaagagttacataagtcaggttgat----tttcttttcagccaacctttagtctttgtattaattatttattatttttacc---ttttgtattattc--atgaagGTTGCTTCCTCTGTACTTTCCTCGGGATAAACATGAGGAGCAAGTTGCTTTGTCTAAACTTCCTGCAGATGTTGGGGATGAAAATGGTGAGACAATCTCA
upper sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtg-atgctattattttgtttctaattatgattttttgcccttaagttttgttgg--acttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
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-------------------------------------------------------------------------catgtagaaatgctggcaatgtatataccataacttc--ttatatttgaggggtgcag-----aagcaatgccgaccattgctaaaaatttgactctcta-aatgtagATTACTTCCACTTTACTTTCCTCGAGATGAACATGAGGAAGAGGTTGCCATATCAAAGCTCCCGGCTGATGTTGGAGATGAAAATGGTGAGACGGTTATAMapped 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|110698826|gb|EE076764.1|EE076764EST: GCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG ATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAAT
genomic: GCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAGgtatgtctgt ... tacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAAT
EST:
gi|161715719|gb|FC067810.1|FC067810EST: GCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAG ATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAAT
genomic: GCTGTTGTCTTCTGTACTACCACAGCAAATGATACTGAGATATATAAAAGgtatgtctgt ... tacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
cttatcctattttgcc CT-rich tract
tttttacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctgtattcttgtttgtgccattctgttgctgatctttatgccactttttgaattagttgctaggcaccttgtttcgcctatggcattgtgatgctattattttgtttctaattatgattttttgcccttaagttttgttggacttatcctattttgcctttttacaatgcagATTGCTTCCACTTTATTTTCCTCGGGATAAACATGAAGAGGAGGTGGCAATGTCAAAGCTTCCTGCAGATGTAGGGGATGAGAATGGTGAAACAATCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG