Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 3'ss of exon 4
--------------gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
| || | |||| | | | |||| | ||| | ||| || | || | ||| || || | |||||||| |||||||| ||||| |||||||||||||| ||||||||||| || ||||| ||||| || ||||||||||| || || |||||||||||||||||||
gtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatttagattgtaacattctcatatttcttaaat---attcattttcagGACTACAATGCAAAACTCTCTGATTTTGGACTAGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTATCTACTCGAGTCATGGGAACTTATGGATATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G028037_T02 (Zea mays), 3'ss of exon 4
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
||||| || | | | || | | | | | ||| | | || | || | || | |||||||| || || || ||||| |||||||||||||||||||||||||| || ||||| ||||| || ||||| || || | || |||||||| ||||||||||
gtaagcaacta----tattgaaatgttaaaaatattcattcatacaaatgtatttgctaac--atatttt-tttcagGACTATAACGCAAAACTCTCTGATTTTGGACTTGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTGTCAACTAGGGTCATGGGAACATATGGATATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G132184_T03 (Zea mays), 3'ss of exon 4
gtaagt-aataaaaactgtgata-aattcacgtttgtctcctaatatcattccatcttttatatgacatc-ctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
|||||| ||| || | | || | | | || |||| | | | | ||| | | || || | |||||||| || || || || ||||||||||| ||||| ||||| || || | || ||||| |||||||| ||||| || || |||||||| ||||||||||
gtaagttaatgaataggattatgcagtgtgtgcttcatgatctatatactgctacatcatatgttatattgcttgtacagGAGTATAACGCAAAGCTCTCTGATTTTGGGCTTGCGAAAGACGGACCTGTAGGTGATAAAACTCATGTTTCTACTCGAGTAATGGGAACCTATGGATATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G16300.1 (Glycine max), 3'ss of exon 5
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctat---ttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
|||||| ||| | | | ||| | ||| ||| | || | | | ||||||| || || ||||||| |||||||| || || || || ||||||||||| ||||||||||| ||||| ||||| |||||||| ||||| || || |||||||| ||||| ||||
gtaagtgccaaa--ttttaaattattaccatttttcttttcattccttgatttgatttatatattattataactattcagGAATACAATGCTAAGCTCTCAGACTTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACTCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G02570.1 (Glycine max), 3'ss of exon 4
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
|||||| ||||||| |||| | | ||| | | | ||||| || | || | | ||||||||||||||||||| || || |||||||| ||||| ||||||||||| || || ||||| || ||||| ||||| || || |||||||| ||||| ||||
gtaagtgtcaaaaactacaataagattgcatttccccctttttatcagtcta--------atattgtaccgattcagGAGTACAATGCCAAGCTCTCAGATTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G40770.1 (Glycine max), 3'ss of exon 4
gtaagtaat-aaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgac-atcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
|||||| ||| | | || || ||| | | | | | ||||||| | || | ||||||| |||||| | || || || |||||||||||||| ||||||||||| ||||| ||||| || ||||| ||||| || || |||||||| ||||| ||||
gtaagtggccaaatgttaagttattaccatctttcttttcattccttgatttgatctttatattattataacaattcagGAATACAATTCTAAGCTCTCAGATTTTGGACTTGCAAAAGATGGTCCAGAGGGTGATAAAACCCATGTGTCTACTCGAGTGATGGGAACCTATGGTTATG
upper sequence: Vv01s0026g01620.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G04930.1 (Glycine max), 3'ss of exon 4
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
|||||| ||||| |||| | | | | || | | || | | || || | ||||||| ||||||||||| || || || ||||| ||||| ||||||||||| || || ||||| || ||||| ||||| || || |||||||| ||||| || |
gtaagtgcccgaaactacaataagattgcatatttcctc------ctttttgttagtctaatattgccccaattcagGACTACAATGCCAAGCTCTCAGACTTTGGTCTTGCCAAAGATGGTCCAGAAGGTGATAAAACCCATGTGTCTACTCGGGTGATGGGAACCTATGGTTACGMapped 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|161715633|gb|FC066791.1|FC066791EST: GGCCAGTTATATATCGTGATTTTAAGACCTCCAACATCCTATTGGATGCA GAGTACAATGCCAAGCTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAG
genomic: GGCCAGTTATATATCGTGATTTTAAGACCTCCAACATCCTATTGGATGCAgtaagtaata ... cctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
tcctaat putative branch site (score: 2)
tcctatttc putative PPT
atcttttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaataaaaactgtgataaattcacgtttgtctcctaatatcattccatcttttatatgacatcctatttcagGAGTACAATGCCAAACTTTCTGATTTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT