Sequence
atgc intronic sequence ATGC exonic sequence...ttgtccttacctaaaaggatctaggtaatgtcaatagagccagtggttcttataaaagaaataaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 3'ss of exon 8
----------------ttgtccttacctaaaaggatc-taggtaatgtcaatagagccagtggttcttataaaagaaataaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC---
|| ||| | ||| | || || || | || || | | | | || | ||| | | | | || | | | || ||||||| ||||| | || | | | | | | | | || | ||||||||||| || || ||||||||||||||||||||||| | | || |||||| |
gtataattttattgtcacgttcttcgcaaaaggcttcataattattagcattaca--taattatatttgttgtgacaatgatatagaagctcttgctactatctga-----ctgcagACAGTGAAGCGCC---ACAAGAACCAGCTAAACACCACAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCAAATATCATCAATCAGATTGATACTCT
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 5
-----ttgtccttacctaaaaggatctaggtaatgtcaatagagccagtggttcttataaaagaaataaggcatctgataatgtttccttat--gggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC---
||| || | || || ||| | | ||| || || || || || || ||||| ||| ||||| || | | ||||||| ||||| || | | | | ||| | | ||| | ||||||||||| || || ||||||||||||||||| ||||| | | || |||||
ggttcttgaccctgtacaatagt-tcttgatcctgt-gatttagttcttgaccct-----gtgatatgtggcattgtctaaagtttctttcttttatcttactgcagACAGTGAAGAGCC---ACAAGAACCTGCCAAACACCATAATAGATTGGGACCAGCAGGCCTTGCATTGCATTATGCTAATATCATCAATCAGATTGACAATCT
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G046846_T01 (Zea mays), 3'ss of exon 8
ttgtccttacctaaaag--gatctaggtaatgtcaatagagccagtggttcttataaaagaaataaggcatctgat-aatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC---
||||| || || | || || | ||| | | | | | || || ||| | || || | || |||||| ||||| | | | | | | || | | | | |||||||| || || ||||||||| |||||||||||||||| | | || |||||| |
---tccttccccgaacgctgacatatattatgaccgttttcttcaccggtactgtatttatgatttatcattgactgaagattatcaccctaacactatgcagACAGTGAAGAATC---ACAGGAACCTACCAAACGACGTAATAGATTGGGTCCAGCAGGTCTTGCACTGCATTATGCAAATATCATCAGTCAGATTGATACTCT
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G16680.1 (Glycine max), 3'ss of exon 6
ttgtccttacctaaaaggatctaggtaatgtcaatagagccagtggttcttataaaagaaata--------aggcatctg--ataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
| ||| | | |||| ||| || | |||||| || ||||| | | ||| || ||||| ||||||| ||||||||| | | ||| | | |||| |||| ||| ||||||||||| ||||| || ||||| ||||||||||||||||| || | ||||||||| |
-------ggagtgggaggggtgggattatgtttatattttcat--gatcttatcaatgaaatctatattctgcgtacctgtaatgttgtttatccatgggca-cctgcagATGACCACAAACCATTCATTGGACACATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATAC
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G38370.1 (Glycine max), 3'ss of exon 7
--ttgtccttacctaaaaggatctaggtaatgtca--atagagccagtggttcttataaaagaaataaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
| | | ||| | | | || | ||| || || || |||| ||| | | | || ||||| ||||||| ||||||||| | ||| | | |||| |||| ||| ||||||||||| ||||| || ||||| ||||||||||||||||| || | ||||||||| |
attagaaaggagaaaaaggtgtgtttatattctcatgatctcatcaatgaaatctatattctgcata---cctgtaatgttgtttatccatgggca-cctgcagATGACCCCAAACCATTCATTGGACGCATGAGCAATCGCCAAAGATTGGGCCCTGCAGGCCTTGCTTTGCATTATGCAAATATAGTGCTTCAAATTGATAC
upper sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G08660.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------------------------------------ttgtccttaccta--aaaggatctag---gtaatgtcaatagagcc-----agt--ggttcttataaaagaaa-taaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
| ||| || | | | |||| | ||| ||| || || | | ||| | | || || | | ||| ||| | | || | || ||||| | | || | || ||| ||| || || ||||||||||||||||||||||||| || |||||||||||||| || |||| ||||| |
gtatgtaagttcctcctttttgtaccttcaccatgtgctactgagcatgtatctaagcttttgattttttctctcgtccactactcttttttactacatgctctaatatatcttgttaattgatcctccataattaagttttcacgcaacaacctgaattttcttatattaaattatttttctttgcc--cagATGATCAACCATCGAAGAAAGGAGCTGCAGAATATGATAAAAGATTGGGACCTGCTGGTCTTGCTTTACATTATGCAAATATAATTGTGCAGATTGACACMapped 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|161718502|gb|FC069286.1|FC069286EST: TATTGTCCACTTTTTACATCTGGAGATACGCAATACCTTTGGCACTGTAG ATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGAC
genomic: TATTGTCCACTTTTTACATCTGGAGATACGCAATACCTTTGGCACTGTAGgtatgtatgc ... caacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcttataaaagaaataaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
atctgat putative branch site (score: 4)
tataaaagaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtccttacctaaaaggatctaggtaatgtcaatagagccagtggttcttataaaagaaataaggcatctgataatgtttccttatgggcaacctgcagATAGTGATACACCTGTAAATGGATCTGTGAGTGATCATCAAAGATTGGGACCTGCTGGTCTTGCATTGCATTATGCAAATATTGTTATGCAAATTGATGC
- - - - - - aaaagga
- - - - - - - - - - - - - - - - aatagag
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatctg