Sequence
atgc intronic sequence ATGC exonic sequenceTGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 5'ss of exon 20
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgt-ctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
||| || ||||| |||||||| || || || |||||||| || ||||| ||||| || |||||||| || ||||| || || |||||||||||||| |||||| | || || ||| || | | | ||||| ||| | |||| || ||| | | ||||| | ||
TGAGGATGCAGTTCCATGCATTGCTCTCTCCAAGAATGATTCTTATGTGATGTCTGCATGTGGTGGGAAGGTTTCACTGTTTAACATGATGACATTTAAGgtaaatgctcaatatcttttttggataaatacttcaaa------attcaggaaatttta--attatgcttccttcat--gcag
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GRMZM2G316967_T01 (Zea mays), 5'ss of exon 20
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgta-tgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag--------------------
|| || ||||| |||||||| ||||| || |||||||| || ||||| ||||| || |||||||| || ||||| | || ||||||||||||||||||||| ||||||| || | | | || || || | | | || | | || | | | |||| |||
AGAGGAGGCAGTTCCATGCATTGCACTCTCAAAGAATGATTCCTATGTGATGTCTGCTTGTGGTGGGAAGGTTTCTTTGTTTAACATGATGACATTCAAGgtaatgtctaactattttattctgatgatttttcaaacttcaagaagagttagggcct-gtttgtt--taccctcatctgtgttgtttgtttgtctcttaact
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GRMZM2G416836_T01 (Zea mays), 5'ss of exon 18
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgta-tgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
|| || ||| |||||||||| ||||| || |||||||| || ||||| ||||| || |||||||| || ||||| | || | |||||||||||| |||||| ||||||| | | | | | ||| |||| | | | |||| || ||| | ||||| | ||
AGAGGAGGCAATCCCATGCATTGCACTCTCCAAGAATGATTCCTATGTGATGTCTGCTTGTGGTGGGAAGGTTTCTTTGTTTACCATGATGACATTTAAGgtaatgtctaactgttttattctgatgaaattttcagattt------caagaagattta--atcatgcatccttcat--gcag
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GLYMA10G29090.1 (Glycine max), 5'ss of exon 21
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaaacat-cacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
||||||||||||||| ||||| ||||| || || |||||||| ||||| ||||| |||||||||||||| ||||| || || |||||||||||||||||||| ||| | || ||| | || | ||| |||||| | | || |||| || |||| ||| |||
TGAAGAAGCAGTCCCTTGCATTGCACTCTCAAAAAATGACTCTTATGTTATGTCTGCCTGTGGTGGAAAGGTTTCTCTATTTAACATGATGACATTCAAGgtgtgtgtccggatatacaactctgatattccatt--------catttgttaagtttattgatgactttactttt-tttatag
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GLYMA20G38230.1 (Glycine max), 5'ss of exon 21
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgt--ctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
|||||||||||| || ||||| || || || || ||||||||||| || ||||| |||||||||||||| ||||| || || |||||||||||||||||||| ||| | || || ||| | || | ||| |||||| | | || || | || |||| ||| |||
TGAAGAAGCAGTACCTTGCATTGCCCTCTCAAAAAATGACTCATACGTTATGTCTGCCTGTGGTGGAAAGGTTTCTCTATTTAACATGATGACATTCAAGgtgtgtgtccgaatat-acaactctgatattccatt--------catttgttaagtttattgattactttactttt-tttatag
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GLYMA03G39290.1 (Glycine max), 5'ss of exon 21
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgta--tgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
||| ||||| || || ||||| ||||| || ||||||||||||||||| ||||| || ||||||||||| ||||| | || ||||||||||||||||||||| |||| | | || ||| || | ||| | ||| | | || || | | | || || |
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAATGACTCATATGTTATGTCTGCATGTGGTGGAAAGGTTTCGTTATTTAACATGATGACATTCAAGgtacatgtccagagat-acaaccatgacattccatacagcc--gcaatgtttactgtatacttaggtttattttctatcag---
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: GLYMA19G41840.1 (Glycine max), 5'ss of exon 20
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgta--tgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag---
||| ||||| || || ||||| ||||| || ||||| ||||||||||| ||||| || ||||| ||||| |||| | || ||||||||||||||||||||| |||| | | || ||| | | ||| || || | | || | | | || ||| ||| ||
TGATGAAGCTGTTCCTTGCATTGCACTCTCAAAGAACGACTCATATGTTATGTCTGCATGTGGCGGAAAGATTTCTTTGTTTAACATGATGACATTCAAGgtacatgtccagagatacaagtacaaccattacattccgttccgctgctatgtt--ttctgtttacttatggtttattttctatcag
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 20
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaaaca--tcacagttttgcatcttcatcaaat---ttggcatttgaaatggtttagcatgatgttgctttcatttgtag----------------
|||||| || || || |||||||| |||||||||||||| || ||||| ||||| |||| || |||||||| || | ||||| |||||||||||||||||| || | | | | | || || | ||| | || | | | ||||| | |||| | || ||| | | ||
TGAAGATGCTGTGCCTTGCATAGCGCTATCGAAGAATGATTCTTATGTGATGTCCGCCTCGGGAGGAAAAGTCTCTTTGTTCAATATGATGACATTCAAGgtagagcttacgaatttagacattggctttctcagctgatgaacttgtttatgaaacagcgatgcat--ttctggcttc-taggaagttcgctttgtttcttt
upper sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 20
lower sequence: EFJ30926 (Selaginella moellendorffii), 5'ss of exon 20
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
|||||||| || || ||||| || | || || ||||| |||||||| ||||| |||| |||||||||||| || |||||||||||||| || |||||||| | | | | ||| | | || ||| | |||| |
AGAAGAAGCTGTTCCGTGCATCGCCTTGTCTAAAAATGATTCATATGTGATGTCTGCCTCGGGTGGAAAAGTTCTGCTTTTCAACATGATGACGTTTAAGgtatgccgatttgttgctctttctc-cagtgatgaaacc--attgtcgaaacag----------------------------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|71855117|gb|DT004172.1|DT004172EST: TGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAG GTAATGACAACATTCATGTCACCTCCCCCTGCTTCAACCTTCCTAGCCTTC
genomic: TGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaa ... tcatttgtagGTAATGACAACATTCATGTCACCTCCCCCTGCTTCAACCTTCCTAGCCTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAGAAGCAGTCCCATGCATAGCACTATCGAAGAATGACTCATATGTAATGTCGGCCTGTGGTGGAAAAGTTTCCCTCTTCAACATGATGACATTCAAGgtatgtctaaacatcacagttttgcatcttcatcaaatttggcatttgaaatggtttagcatgatgttgctttcatttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA