Sequence
atgc intronic sequence ATGC exonic sequenceCTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 5'ss of exon 10
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacc-cagat-catctcccgtgt-tctagtagttagcaataact-cattttcagggcatg-atttttgcttgcag------------------------------------------------------------
|| ||||||||||||||||| || ||||| |||||||| ||||| ||||| || |||||||| || ||||| ||||| |||| ||||||| ||||||||| | ||| | | ||| ||| | | | | | | | | ||| | ||| || ||| || | || ||||
TTTCTATGAGGAGCAATTGCACCGGATGGAGTGCATGGCACAAGAACCTGTGCTTTTTGAGGACATATTATGCCAGATGATTGATATGATTGGACCAGAGgtagcatcttggacagaattattgatgcattttaggcctgtttggaacagtggaatgtcagcatgttgaggaattgcaccatttaatgcaaaattcctgtgttccaaacaagtccttaaactgaatttgataaatcttttcttttccacag
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G148323_T01 (Zea mays), 5'ss of exon 10
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcag
|| || |||||||||||||| |||||||| |||||||| ||||||||||| || ||| ||| || ||||| ||||| |||| ||||||| ||||||||| | | | | || | | | | | | | | | | | | |||
TTTCTACGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAAGAGCCTGTGCTTTTTCTGGACATATTATGCCAGATGATTGATATGATTGGACCAGAGgt-agattctcatacatattacataaacgttttatctgggcttgataaatattttcctttctacag--------------------
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S7_163V6.1 (Physcomitrella patens), 5'ss of exon 10
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggctt-------ttttcgtacccagatcatctcccgtgttctagtagttagcaataac--tcattt---------tcagggcatgatttttgcttgcag----------------------
||||| ||||||||| | ||||| ||||| |||||||| || |||||||| || |||||||||||| | ||||| || || ||||| | ||| | || | | || | | ||| | | || | | ||| | || | | | | |||||| | | | |||| || |
TTTTTACGAGGAGCAACTTCATCGGATGGAGTGCATGGCTCAGGAGCCTGTTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCTgtaagcgtttgagtagtctcttctacattggttgcttcac-tattcgactaaatgggtctcgcattcatttcactgctagttaatgtgaagttttcactgaaacttatcctctactctggctgcag
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S191_94V6.1 (Physcomitrella patens), 5'ss of exon 11
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgattttt-----gcttgcag---------------------------------------
||||||||||||||||| |||||||||||||| ||||| ||||| | | ||||||| || || | ||||| || ||| ||||| ||| |||| | ||| | | |||| | ||| | || || | || ||| | || | | | | ||
TTTTTATGAGGAGCAATTACATCGAATGGAATGTATGGCACAAGAAGCAATTTTATTTGAAGACATTGTTTGTCAAATGTGTGATATGATCAAACCTAAGgtaa---ttttgcatggatttagattgattgt-gtgcataattacctaatattagagagcttttaaattttgttgctaaaaaagttactaggattttatggattcttatgtttcttttgttggtttacag
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S147_62V6.1 (Physcomitrella patens), 5'ss of exon 10
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacccagatcat-ctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcag------------------------------------------------------
||||||||||||||| | ||||| ||||| |||||||| || |||||||| || |||||||||||| | ||||| || | |||||||| | ||| | ||| | || || | | | | | |||| | |||| | || | | | | || | | | |||| || |
TTTTTATGAGGAGCAACTTCATCGGATGGAGTGCATGGCTCAGGAGCCTGTTCTTTTTGAGGATATCGTTTGTCAAATGGCAGACATGATAGGACCTGCGgtaatcttttggtttgaagctttgtattactccgatattctg--aacaggctttctcacggtcgcactgaacaggtcttgcgtgaacttcatcgctgctttgtatgaagttcttgctgaaatttttcttctctggttgcag
upper sequence: Vv07s0005g03730.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: EFJ32791 (Selaginella moellendorffii), 5'ss of exon 10
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtca--cggcttttt-tcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcag
|||||||||||||||||||||||| ||||| ||| | || ||||| || || || || ||||| || | || ||||| |||||||| |||||||| ||| ||| | | || | || | || | || | |
CTTTTATGAGGAGCAATTGCATCGCATGGAGTGCCTAGCTCAAGACCCCGTCCTCTTCGAGGACATAGTCTGCCAGATGACGGACATGATCTGCCCAGAGgtgcgttagctgtttgtagcttccgggctctcgtcaatgcttatgtgatcgattgcag-------------------------------Mapped 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|161708749|gb|FC060060.1|FC060060EST: TACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAG AGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGA
genomic: TACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggctt ... ttgcttgcagAGGGAAGAATATATCACCCTACGTGACTTGAAGGGATGCAAACTTTCTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTTATGAGGAGCAATTGCATCGAATGGAATGCATGGCCCAAGAGCCTGTACTATTTGAGGATATCTTATGTCAGATAGTTGACATGATTGCACCAGAGgtcacggcttttttcgtacccagatcatctcccgtgttctagtagttagcaataactcattttcagggcatgatttttgcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT