Sequence
atgc intronic sequence ATGC exonic sequenceCAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 5'ss of exon 7
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattca--gcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||||||||||||||||| || ||||| | ||| ||||| || || ||| ||||||| |||||||||||||| |||||||| | ||||||||||| ||| | |||| || | | || | | | |||| | | || || || |||| | | ||||| | || |
GAAAGATCGTCCATCTTGGTTCCGTGATTGTCGAAACCTGGAAGTCTTTACAATGATTCCAGCAGGAAATGGAGGAACGGTTGAACTTGTCTACACACAGgtgaacactgtttcattttacattgtat--aatggtatatcctcagtcttctctatcaatgcatgtgcttcatgccatgaacattattacttgtttttgcttacag----------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 5'ss of exon 6
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacg----acaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||| || |||||||||||||| || ||||| || |||||||| ||||| |||||||||||||||||||| || || | ||||| | |||| ||||| | || | || |||||| | | | ||| | ||| | ||| | | | | | || | | | | | | |||| | | |
AAAAGACCGCCCATCTTGGTTCCGTGATTGTCGAAGTCTTGAAGTCTTCACAATGTTTCCAGCTGGAAATGGTGGCACGATCGAACTTGTTTACATGCAGgtgagcgttacatcctaacttttttcttgaattaagtatcc-catcattaatttttgccacatgcattccctttttatttatcattcttggctttttcgctcag--------------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G469551_T02 (Zea mays), 5'ss of exon 7
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgaca-atagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
|||||||||||||||||||| || || |||||||| |||||||| | || ||||| |||||||||||||| ||||| ||||||| | |||| ||||| | | | | | ||| | | | | | || | | ||| | || | ||| | | | || |
GAAAGATCGTCCATCTTGGTTTCGTGATTGTCGGAGTCTTGAAGTCTATACAATGTTACCAGCTGGAAATGGTGGAACCATTGAACTTGTTTACATGCAGgttagctatacgttgctgatcattacatttgttaaaaaacaat--ggtgctcttatatgtagttttggtttttttccttcag---------------------------------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 7
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctt--tttgatgggagtaaa-cgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||||| ||||||||||| || ||||| || || ||||| || || |||||||||||||||||||| ||||| ||||||| | |||| ||||| | || || || ||| | | |||||||| | || | | | || || | ||| |||| || |
GAAAGATCGTCCCTCTTGGTTCCGTGATTGTCGAAGTCTGGAAGTGTTTACAATGTTTCCAGCTGGAAATGGGGGAACAATTGAACTTATCTACATGCAGgtgggcatttctattttgcttcattggttatgtttcttcagcatttctggtgaactgtatgacccatta----tgtggatggtaat---atttgtatgtgcag--------------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G109987_T01 (Zea mays), 5'ss of exon 7
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||||| ||||||||||| || || || || |||||||| || || | |||||||||||||||||| ||||| ||||||| | |||| ||||| | | | ||| | | | | || | || || | || || | || | | | | | || || |
GAAAGATCGTCCCTCTTGGTTCCGTGATTGCCGAAGTCTTGAAGTGTTTACAAGGTTTCCAGCTGGAAATGGGGGAACAATTGAACTTATTTACATGCAGgtgtgcaatttttattttgcttcattgttgat-----gtttcttcagcatttctggtgagctgcatgactcattacgtggatggtaatatttgtatgttattgcag--------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G20520.1 (Glycine max), 5'ss of exon 6
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctt-tgaatat-cctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||||||||||||||||| |||||||||||||| |||||||| || |||||||| ||||||||||||||||| ||||||| | ||||||||||| | | ||| ||| | | | | ||| | | | | | ||| | ||| ||| | | |||| | |||
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACACAGgtgagcctcaaa-----tttaa--gacttctttgtcagttccgtttttgtttttgttgttcctgtgagtatacttaaattgcta--cag---------------------------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 6
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||||||||||||||||| |||||||||||||| |||||||| || |||||||| ||||||||||||||||| ||||||| | ||||| ||||| | | ||| ||| | | | || | || | || ||| |||| | | | | | | |||
TAAAGATCGTCCATCTTGGTTCCGTGACTGTCGGAGCCTAGAAGTTTTTACTATGTTTCCTGCTGGAAATGGAGGAACCATTGAACTTGTTTACACGCAGgtgagcctcaaa-----tttaa--------------gacttatttgttggttctgttttttttttttgttcctatgattatacttaatttgctacag-----------------------------
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 5'ss of exon 6
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
||||||||| |||||||||||||| |||||| ||||||||||||||||||| ||||| || ||||| ||||| || || | || || | || | ||||| || | |||| | || || || | || | || | | || | |||||| || ||| ||| |
CAAAGATCGGCCATCTTGGTTCCGTGACTGTAGGAGCCTTGAAGTTTTCACTATGTTCCCGGCTGGTAATGGTGGCACAATCGAGCTTGTTTATATGCAGgtgaatc-ctttagcctctt--ctggtttagttttc--tatctctaacacttgaaga--tgaatgaataaa--gttgtgacatttgttcag-----------------------------------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|161721412|gb|FC070776.1|FC070776EST: CCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAG ATATATGCCCCAACTACGCTGGCTCCTGCACGGGATTTCTGGACTCTGAGA
genomic: CCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgaca ... tgcctttcagATATATGCCCCAACTACGCTGGCTCCTGCACGGGATTTCTGGACTCTAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAAGATCGTCCATCTTGGTTCCGGGACTGTCGGAGCCTTGAAGTTTTCACCATGTTTCCAGCTGGAAATGGAGGAACTGTTGAACTCTTATACACACAGgtaaacgacaatagctttttgatgggagtaaacgacagcattttgaatatctcaaatcttctttgaatatcctgtattgaaattcagcttgtctggactaatgaatacaaacaaaatgcctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA