Sequence
atgc intronic sequence ATGC exonic sequence...ttaatttctttgcaatgattggatccttacaacatgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G36790.1 (Glycine max), 3'ss of exon 4
ttaatttct-ttgcaatgattggatccttacaacatgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
||| | | | | | | | | | | | | | | | | || | | | ||| | ||| ||||||||| |||||||||||||| ||||||||||||||||| |||||||| || || |||||| ||||||||||||||||||||||||| ||||| ||||||||||| ||||
-gaatatggactaggttagtacgtctcatcttatgaatgttatcccactttctctttcttctcatgtagtttttgcttaatttttttggcttttgctttagGTTGTTGCTCACATGATGCCTGACCTTCCTAATGTTGGTGTTGAAAGGGACATGGAAAGTTTCCGGGAGTTTTTTGAGAGCCCCATGTTTAGAGCAGATG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G18150.1 (Glycine max), 3'ss of exon 4
ttaatttctttgcaatgattggatccttacaacatgcatcagactaatcttgcaattt--tggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
||| | | | | | | |||| || | ||||| ||| | ||| | || | | |||| ||||||||| |||||||||||||||||||||||||| |||||||||||||| || || |||||| ||||||||||||||||||||||||| || || |||||||||| ||||
--aatatggactaggttagtaatgtcccatctcatgaatgttatcccacttgctctttcttttcatttagtttatgcttattattttgggcttttgctttagGTTGTTGCTCATATGATGCCTGATCTTCCAAATGTTGGTGTTGAAAGGGACATGGAAAGTTTCCGGGAGTTTTTTGAGAGTCCCTTGTTTAGAGCAGATG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G50320.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------------------ttaatttctttgcaatgattgg-atcctta----caacatgcatcagactaatcttg---caattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
| | | ||| | ||| |||||| ||| ||| || | | | || | | | || | | ||| | ||| ||| || ||||| ||||| |||||||||||||| ||||| ||||||||||| ||||| ||| ||||||||||| ||||||||| || ||||| |||||||| ||||
gtattcccttatagattagtctttataaatatttttagttttctcatgttagtatcaagtttatcttggcagctttcacctcctatgtttctgttcattaatatccttgaaaccaatgaacatttctttattttagagacactgctaaatttgtatccttacctccgttttt-cattttgcctatagGTGGTTGCACATATGATGCCTGATCTTCCTAATGTTGGGGTTGAGAGAGACATGGAAAGTTTCAAGGAGTTTTTCGAGAGCCCATCTTTTAGAGCAGATG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ27096 (Selaginella moellendorffii), 3'ss of exon 3
------------------------------------------ttaatttctttgcaatgattggatccttacaacatgcatcagactaat---cttgcaattttggagttttctacttgttgctaatttcatgcttttgctg-----------tagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
| ||| | || | ||| | || | | || | | | || || | | | | ||| | || | | ||||||||| |||| |||||||||||||||||| |||||||||| ||| | || ||||| ||||||| ||||| ||||||||||||| ||| ||| |||| || |
gtgagatactcagagcatgctgccatcaagtgcattggactgatcattgagacgtaaggcttgcgtggtttctttctacacctggtcgttttcctcgctgtagcaggcgtcccgactactgtctgtctcctcacttttgctgattatgtatttcagGTGGTTGCTCATATGATGCCTAACCTTCCAAACCTTGATATGGAACGGGACATGGAAAGCTTCCGCGAGTTTTTTGAAAATCCTTCCTTTCGAGCGGACG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ27078 (Selaginella moellendorffii), 3'ss of exon 4
ttaatttctttgcaatgattggatccttacaacatgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
| | || ||| || || ||| | ||| ||| | || |||| |||||||||||||||||| |||||||||| || | | || ||||| ||||||| ||||| ||||||||||||| ||| ||| |||| || |
-----------------------------------------gtccgat--ggcatttcctacacgaacttctt-tcgctgattatgtatttc------agGTGGTTGCTCATATGATGCCTAACCTTCCAAACGTCGATATGGAACGGGACATGGAAAGCTTCCGCGAGTTTTTTGAAAATCCTTCCTTTCGAGCGGACG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ21495 (Selaginella moellendorffii), 3'ss of exon 2
--------ttaatttctttgcaatgattggatccttacaaca-tgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
| ||||||| | | ||| || | | || ||| | | | | | | | |||| | ||| ||| | || |||| |||||||||||||||||| |||||||||| |||| | || ||||| ||||||| ||||| ||||||||||||| ||| ||| |||| || |
aggcttgcgtggtttcttt-ccacacctggtcgttttcctcgctgttgcaggc-gtcccgactactgtctgtctcctcactt-tcgctgattatgtatttc------agGTGGTTGCTCATATGATGCCTAACCTTCCAAACGTTGATATGGAACGGGACATGGAAAGCTTCCGCGAGTTTTTTGAAAATCCTTCCTTTCGAGCGGACG
upper sequence: Vv17s0000g10190.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ21323 (Selaginella moellendorffii), 3'ss of exon 2
ttaatttctttgcaatgattggatccttacaacatgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
| | || ||| || || ||| | ||| ||| | || |||| |||||||||||||||||| |||||| ||| |||| | || ||||| ||||||| ||||| ||||||||||||| | | ||| |||| || |
-----------------------------------------gtccgat--ggcatttcctacacgaacttctt-tcgctgattatgtatttc------agGTGGTTGCTCATATGATGCCTAACCTTCGAAACGTTGATATGGAACGGGACATGGAAAGCTTCCGCGAGTTTTTTGAAAATCATTCCTTTCGAGCGGACGMapped 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|71881670|gb|DT030725.1|DT030725EST: TAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATACTGGTTTCAAG GTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGAC
genomic: TAGCTGCTGTGGCTGATTGTTTTTGCTTGGCCAAGGATGCTGGTTTCAAGgttagatgct ... tttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
tgctaat putative branch site (score: 2)
cttttgct putative PPT
taatttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaatttctttgcaatgattggatccttacaacatgcatcagactaatcttgcaattttggagttttctacttgttgctaatttcatgcttttgctgtagGTTGTTGCTCATATGATGCCTGACCTTCCAAATGTTGGGGTAGAGAGGGACTTGGAAAGTTTCCGGGAGTTTTTTGAAAGCCCTATGTTTAGAGCTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - -ctttgca
- - - - - - - -tgattgg
- - - - - - - - - - - - ccttaca
- - - - - - - - - - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - - - - - cttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgct