Sequence
atgc intronic sequence ATGC exonic sequencegtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g25440.2 (Oryza sativa), 3'ss of exon 6
----------------------------gtataggctcttatcataacctgtt----gctataaaaattgttacaattgatgatttcctttttttttttcatgtgaa-ttat-ttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
| | | | ||| | | || || | ||| || || | | | || || | || |||| | ||| | || | | | | |||||| || || |||||||||||||||||| | |||||||| ||||||||||| ||||| |||| |||||||||||||||||||| ||| | || || |||||
gtaccatgctacaattgcgtaatcagccacaaaatgtttggacatgaacatttccgtgccagcaaagttatttagtgcagttgtgctgagcactcattatatttcaacttatatccattcttataatggcgttaatttgcatattcagGTCATGAAGAGTCATATAATCCTTCTGTTGAATACATTCCAACACAAGAGGAGATAGATTCATATCAGCTTATGTATGAGGAGGACAGGCCAAAGTTTAT
upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G00540.1 (Glycine max), 3'ss of exon 1
gtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
||| | | || | | |||| || |||| ||| || | |||| ||| | | || || | | || || | | || | | |||||| || ||||||||||||||| || |||| ||||| ||||| ||||||||||| ||||||||||| | |||| ||||||||||||||| || |||||
----------gtattaaattttggagttccaaaatttac--caatagataatatgggttttgcctttgactttgat-atatcttcaatgttaataatttaattttgcttcttagGCCATGATGAGTCATATAATCCTCCTCTAGAGTACATTCCAACCCAAGAAGAGATCAATTCTTATCAATTGATGTTTGAGGAAGACCGCCCCAAGTTTAT
upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G28910.1 (Glycine max), 3'ss of exon 8
gtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
|||| | | | || | | | | ||| | | |||| |||||| | ||||| ||| | | || | ||| | | | |||| || | | |||||| || ||||||||||||||| || |||| ||||| ||||| ||||||||| | ||||||||||| | |||| |||||||||||||||||| |||||
gtattaaatgtgacttaaaattatggagttccaaaatctaccaatagatgatatttgtttttcctttgactttgatgtatcttcattgttaataatttaact-ttgcttcttagGCCATGATGAGTCATATAATCCTCCTCTAGAGTACATTCCAACCCAAGAAGAGGTCAATTCTTATCAATTGATGTTTGAGGAAGACCGCCCTAAGTTTAT
upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ35912 (Selaginella moellendorffii), 3'ss of exon 5
gtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
| || | || || | | | || | | || | | ||||||| ||||| |||||||| ||||| | | || || |||||| | |||| || |||||||||||||||||||||||||| || || || || ||||||||
--------------------------------------------------------------gtgctcgt-cacatgatgttgtagcggttgttgat--gctttgtattttcagGTCACGAAGAGTCATACAATCCCCCAGTCGAGTATATCCCATCTGAAGAGGAAATTAATTCTTATCAGCTTATGTATGAAGAGGATCGACCAAAATTTAT
upper sequence: Vv00s0227g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ09490 (Selaginella moellendorffii), 3'ss of exon 5
gtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
| || | || || | | | || | | || | | ||||||| ||||| |||||||| ||||| | | || || |||||| | |||| || |||||||||||||||||||||||||| || || || || ||||||||
--------------------------------------------------------------gtgctcgt-cacatgatgtcgtagcggttgttgat--gctttgtattttcagGTCACGAAGAGTCATACAATCCACCAGTCGAGTATATCCCATCTGAAGAGGAAATTAATTCTTATCAGCTTATGTATGAAGAGGATCGACCAAAATTTATMapped 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|110378155|gb|EC943274.1|EC943274EST: GGCTGGCCATGGGTTAGCTTATATTCCTGCCCCAAAGTCGAAGCTGCCAG GCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAG
genomic: GGCTGGCCATGGGTTAGCTTATATTCCTGCCCCAAAGTCGAAGCTGCCAGgtataggctc ... ttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAG
EST:
gi|33404441|gb|CF210068.1|CF210068EST: GGCTGGCCATGGGTTAGCTTATATTCCTGCCCCAAAGTCGAAGCTGCCAG GCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAG
genomic: GGCTGGCCATGGGTTAGCTTATATTCCTGCCCCAAAGTCGAAGCTGCCAGgtataggctc ... ttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
ttttgat putative branch site (score: 4)
tttgctttc putative PPT
aattatttgattttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataggctcttatcataacctgttgctataaaaattgttacaattgatgatttcctttttttttttcatgtgaattatttgattttgattttcaaccaactatttgctttcagGCCACGAGGAGTCATATAATCCTTCTTTAGAATACATCCCAACACAAGAAGAGATTAATTCTTATCAGCTTATGTATGAGGAAGACCGCCCTAAATTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA