Sequence
atgc intronic sequence ATGC exonic sequence...agtgggggtgatggtggttatgtttatacatagaatatcatcttgttcagtttgtgcatgcacaatcttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 3'ss of exon 10
---agtgggggtgatggtggttatgtttatacatagaata--tcatcttgttcagtttgtgcatgcacaatcttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
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tcacctgaagattgtgacacacctgcttccatatcaattaagtagtgctatactgattatgagggtaatttcttttttttttgg-----catgtgtcttttgtagGTTGAAACTGTGTTCCATGAATTTGGTCATGCGCTGCAGCACATGCTTACCAAACAAGATGAAGGATTTGTTTCTGGTATTCGTGGAGTAGAATGGGATG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G133919_T01 (Zea mays), 3'ss of exon 10
-------------------agtgggggtgatggtggttatgtttatacatagaatatcatcttgttcagtttgtgcatgcacaatcttatattgttagatatatatgc---atgtt--ttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
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gtaagtaatacatctgtgacatgtatgtgaataaggatatatggagaaagcagtagctctctgcctctccttattatggtactatgaagttgtgtaaattctttctgctgtatgttgcctgtagGTTGAAACTGTGTTCCATGAATTTGGGCACGCCCTTCAGCACATGCTTACTAAACAAGATGAAGGCTTTGTTGCTGGCATTCGTGGAGTTGAATGGGATG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 10
agtgggggtgatggtggttatgttta-tacatagaat-atcat--cttgttca---gtttgtgcatgcacaat--cttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
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--------cgttactggcaattcttaatctatagaattatcctaatttgtgcacttatctataaattcataatggcttacactatctttt-tcttttcatttttctcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAACATATGCTTACTAAGCAAGATGAGGGTCTGGTTGCTGGTATTAGAGGGATAGAGTGGGATG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G02480.1 (Glycine max), 3'ss of exon 10
agtgggggtgatggtggttatgtttatacatagaatatcat--cttgttcagtttgtgcatgcacaatcttatattgtta-gatatata-tgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
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---tgataaaatatcaactgatataatacgttactcactagaattagcctaatttgtgcacttatc-tataaattcattatggtttacactatctttttctcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCTCTTCAACATATGCTTACTAAGCAAGATGAGGGTCTGGTTGCTGGTATTAGAGGGATAGAGTGGGATG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G10540.1 (Arabidopsis thaliana), 3'ss of exon 10
-agtgggggtgatggtggttatgtttatacatagaatatcatcttgttcagtttgtgcatgcacaatc-ttatattgttagata-tatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
||| | ||| || | |||| | || || || | || ||| || | | | || | ||| || ||| ||||| |||||||| |||||||||||||| ||||| |||||||||||||||||||| |||||||||| || || ||||||| ||| || ||||||||||
ttccatacttgaaact--ttaggtgcttttggagaactcttacatgcatggtcaatg-actcatgatccttgttctttatgacaatattattctgatttacagGTAGAGACTGTGTTCCATGAATTTGGCCATGCTCTTCAGCATATGCTTACCAAAGAGGATGAGGGGCTAGTGGCTGGTATCCGGAATATCGAGTGGGATG
upper sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 10
--agtgggggtgatggtggttatgtttatacatagaatatcatcttgttcagtttgtgcatgcacaatcttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
| | | || || ||||| | | | | | | | || | | | | ||| | || || ||| ||||| ||||| || || ||||||||||| ||||| |||||||| |||||||| |||||||||||||| || ||| ||||||| || || |||||||| |
gtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatct---caaaaatcctttcttgttgactataacatcactctgatttacagGTAGAGACAGTATTTCATGAATTTGGACATGCTCTTCAGCACATGCTTACGAAGCAGGATGAGGGGCTAGTTGCTGGTATCCGAAATATCGAGTGGGACGMapped 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|33408872|gb|CF214499.1|CF214499EST: ATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAG GTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACC
genomic: ATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAGgtaaatggta ... tgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACC
EST:
gi|77579724|gb|DV218723.1|DV218723EST: ATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAG GTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACC
genomic: ATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAGgtaaatggta ... tgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcagtttgtgcatgcacaatcttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
aatcttatattgttag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgggggtgatggtggttatgtttatacatagaatatcatcttgttcagtttgtgcatgcacaatcttatattgttagatatatatgcatgttttgcagGTTGAGACTGTTTTCCATGAATTTGGTCATGCACTTCAGCATATGCTTACCAAGCAGGATGAGGGTCTGGTTTCTGGTATTCGGGGGATAGAGTGGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
-gtggggg
- - - - - - ggtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - catgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgca