Sequence
atgc intronic sequence ATGC exonic sequenceGAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctggaatatgattcttattctgtgactagcattcacaagataatagcactgtttctagtgttgcttatctcct...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os04g41910.1 (Oryza sativa), 5'ss of exon 5
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctggaatatgattcttattctgtgactagcattcacaa----gataatagca-ctgtttctagtgttgcttatctcct----
||||||||||||||||| ||||||||||| ||| | |||||||| |||||||| || || || || ||||| |||||||| || | ||| |||||||| | | | | | | | || | | || | |||||| | | ||||| ||| || | || || | ||| |
GAAGCTAACAAACCTCCAGATAGTTGGTTTGATCTCAAAGTTAACACACATGTCTACGTTACTGGTTTGCCTGATGATGTCACAGCTGAGGAGgtaagttgcttatatctttaaaagcactttgtatgctttgaatgacctatttaacacattcatgattatgtaaatagtgtctggttttgatggtgaatttcttttgcag
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G171660_T02 (Zea mays), 5'ss of exon 5
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtc---------aattttgc-ttttatctctggaatatgattcttattctgtgactagcattcacaaga----taat--agcactgtttctagtgttgcttatctcct---------------------------
||||||||||||||||| || |||||||| ||| | ||||| || |||||||| ||||| || || ||||| |||||||| || || || ||||||| | | |||| | ||| || ||| ||| || | || | | | | ||| | | | |||| | | || | | ||| |
GAAGCTAACAAACCTCCGGACAGTTGGTTTGATCTCAAAGTAAACACACATGTCTATGTAACTGGTTTGCCTGATGATGTCACAGTGGAGGAGgtaaattgcttctaccaactaattctatatttcatttctcttatagagatcattttgtttaatgaccatgtaacaaacgcttaattaattggttatttaaaaagtacttgttctgcacttgtgatgctggattccttttgcag
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G411893_T01 (Zea mays), 5'ss of exon 4
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtc---------aattttgc-ttttatctctggaatatg---attcttattctgtgac----tagcattcacaagataatagcactgtttctagtgttgcttatctcct--------------------------
||||||||||||||||| || |||||||| ||| | ||||| || |||||||| ||||| || || ||||| |||||||| || || || ||||||| | | || | | | ||| || ||| ||| | | || || |||| ||||| | || || | ||| | || | ||| |
GAAGCTAACAAACCTCCGGACAGTTGGTTTGATCTCAAAGTAAACACACATGTCTATGTAACTGGTTTGCCTGATGATGTCACGGTGGAGGAGgtaaattgcttctaccaactaactctacatttcatttctcttatagagataattttgtttaatgaccatgtagcaaatgcttaattatttggttatttaaaaagtacttgttctgcacttgtgatgctggatttcttttgcag
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G353114_T01 (Zea mays), 5'ss of exon 8
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtc---------aattttgc-ttttatctctggaatatg---attcttattctgtgac----tagcattcacaagataatagcactgtttctagtgttgcttatctcct--------------------------
||||||||||||||||| || |||||||| ||| | ||||| || |||||||| ||||| || || ||||| ||||||| || || || ||||||| | | || | | | ||| || ||| ||| | | || || |||| ||||| | || || | ||| | || | ||| |
GAAGCTAACAAACCTCCGGACAGTTGGTTTGATCTCAAAGTAAACACACATGTCTATGTAACTGGTTTGCCTAATGATGTCACGGTGGAGGAGgtaaattgcttctaccaactaactctacatttcatttctcttatagagataattttgtttaatgaccatgtagcaaatgcttaattatttggttatttaaaaagtacttgttctgcacttgtgatgctggatttcttttgcag
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G074351_T01 (Zea mays), 5'ss of exon 5
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctggaatatgattcttattctgtgactagcat-tcacaagataat--agcactgtttctagtg-ttgcttatctcct------------------------------------------
||||||||||||||||| || |||||||| ||| | |||||||| |||||||| || | || || || || ||||||||||| || || ||||||| | | | | | || | | | | |||| || | || | | | || || |||| | | | | ||| |||| || |
GAAGCTAACAAACCTCCAGACAGTTGGTTTGATCTCAAAGTTAACACACATGTCTACATAACTGGTTTACCTGATGATGTTACAGTGGAGGAGgtaaattgct---tctaacaactaattatacatttcatttctcttttagagatcgttttgttgaatgaccatgtagcaaattcttaattaattggttatttcataagtacttgttccgaacttctgatgatggttttcttttgcag
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G36110.1 (Glycine max), 5'ss of exon 6
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctggaatatgattcttatt-ctgtgactagcattcacaagataatagcactgtttctagtgttgcttatctcct
|||||||| ||||| |||||||||||||| || ||||| ||||||| ||||||||||| || |||||||| || |||||||| ||| || ||||| ||| ||| | | |||| | || || || | | | || ||| | |||| | | ||
GAAGCTAATAAACCCCCTGATAGTTGGTTTGAATTAAAGATTAATACGCATGTTTATGTCACTGGGTTGCCTGAGGATGTTACCACTGATGAAgtaagtataaacttttcgctcaatttgcctgaatctagtttttgttgcaataattaacatgacatgggtaat-gtattgcag-------------------
upper sequence: Vv00s0499g00010.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA10G31450.1 (Glycine max), 5'ss of exon 7
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctg---gaatatgattcttatt-ctgtgactagcattcacaagataatagcactgtttctagtgttgcttatctcct
|||||||| ||||| |||||||||||||| || ||||| | ||||||||||||||||| || |||||||| || || ||||| ||| || ||||| |||| ||| | | | || |||| | ||| || || || | | || ||| | |||| | | ||
GAAGCTAATAAACCCCCTGATAGTTGGTTTGAATTAAAGATCAATACACATGTTTATGTCACTGGGTTGCCTGAGGACGTTACCACTGATGAAgtaagt--atcaacttttcgcccaaatttgcctgaatgtaatttttgttgctataattaacatgacatgggtaat-gtattgcag-------------------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|110414278|gb|EC980105.1|EC980105EST: ATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAG GTTGTGGAAGTATTTTCTAAGTGTGGGTTAATAAAGGAG
genomic: ATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggt ... taccttgcagGTTGTGGAAGTATTTTCTAAGTGTGGGTTAATAAAGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGCTAACAAACCTCCTGATAGTTGGTTCGATTTAAAAGTTAATACACATGTTTATGTGACCGGGTTGCCAGATGATGTTACTGTTGACGAGgtaagacggtcaattttgcttttatctctggaatatgattcttattctgtgactagcattcacaagataatagcactgtttctagtgttgcttatctcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG