Sequence
atgc intronic sequence ATGC exonic sequenceAAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgctctgctaatacatattgtatttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G58870.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G58870.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA02G39040.1 (Glycine max), 5'ss of exon 11
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgct-ctgctaata--catattgtatttttag----------------------
||||| |||||||| ||||| |||||| ||||||||||||| |||||||| || ||||| || ||||||| |||||| |||||||| | |||||||||||||| || ||||| | || |||| ||||| || ||| ||||| ||| ||| || || | || ||
GAAAGGAAGTGAGAAGGCTGTAGTTGCACGGCATGAAGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCAAACCTTCTTCCTGGACAGCCACGTGTTGAGgtaaaccatggagaatgctctatt-cttggc------cttttaaatatgtcaatgccattgcagatatgcagatgatgcttgtaccacatacttgcctgcttgaatt
upper sequence: AT5G58870.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA14G37090.1 (Glycine max), 5'ss of exon 11
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgct-ctgctaatacatattgtatttttag------------------------
||||| |||||||| ||||| |||||| ||||||||||||| |||||||| || ||||| || ||||||| |||||| |||||||| | |||||||||||||| || || || | || | | | |||| || ||| ||||| ||| ||| || || || |
GAAAGGAAGTGAGAAGGCTGTAGTTGCACGGCATGAAGCTGGTCATGCTGTGGTAGGTACTGCAGTTGCAAACCTTCTTCCTGGACAGCCACGTGTTGAGgtaaaccatggaaaatgctctatttttggcca-------tttaaatatgtcaatgccattgcagatatgtagatgatgcttggaccaagttacttgcctgcttgaat
upper sequence: AT5G58870.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA18G07280.1 (Glycine max), 5'ss of exon 10
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgc---tctgctaatacatattgtatttttag----------------
||| |||||||| ||||| |||||| | ||||| ||||| |||||||| || ||||| || ||||||| |||||| |||||||| | |||||||||||||| || ||| | || || || | ||| | | || || ||| | | ||| || |||||| |
GCGAGGAAGTGAGAAGGCTGTAGTTGCACGACATGAGGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCAAAGCTTCTTCCTGGACAGCCACGTGTTGAGgtaaaccattgaagatgctatattactggcaactaaaaaatgtcac-tgccaatacagatatgcagattgcgcttgtatacacatatttgcctatttgaaa
upper sequence: AT5G58870.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA0028S00210.1 (Glycine max), 5'ss of exon 10
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcatt--ttttacatgtgttaatgctctgctaatacatattgtatttttag----------------
||| |||||||| ||||| |||||| | ||||| ||||| |||||||| || ||||| || ||||| | |||||| |||||||| | |||||||||||||| ||| | | || || || ||| | | | || ||| | | ||| || | |||||||
GCGAGGAAGTGAGAAGGCTGTAGTTGCACGACATGAGGCTGGTCATGCTGTAGTAGGTACTGCAGTTGCGAAGCTTCTTCCTGGACAGCCACGTGTTGAGgtaaactgttgaagatgctctattactggaaactaaaaaatgtcactgccattacagatatgcagattgaacttgtattacgcatatttgcctattttga
upper sequence: AT5G58870.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 5'ss of exon 10
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgctctgctaatacatattgtatttttag----------------------
| || |||||||| ||||| |||||| ||||||||||||| ||||| || || || || |||||||| | ||||||| |||||||| | ||||||||||||| | | || ||| || | | | | | ||||| || |||| | | ||| || | | | |
GCAGGGAAGTGAGAAGGCTGTTGTTGCACGGCATGAAGCTGGTCATGCAGTAGTGGGAACTGCTGTTGCTAATCTTCTTCCTGGACAGCCACGTGTTGAGgtaa-gttattaggaccttatttacaataaatattttcctttac-tgc-ttaacaagtttcaaat-tatttaacctccctggagaatttggaagacacgtgagaMapped 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|124824268|gb|EH909134.1|EH909134EST: GCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAG AAATTAAGCATATTACCAAGATCAGGAGGGGCATTGGGCTTTACATACATT
genomic: GCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagt ... gtatttttagAAATTAAGCATATTACCAAGATCAGGAGGGGCATTGGGCTTTACATACATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAAGGTAGTGAGAAAGCTGTGGTTGCAAGGCATGAAGCTGGGCATGCTGTTGTTGGTACAGCTGTTGCAAGTCTTCTTTCTGGACAGTCCCGTGTTGAGgtaaagcagtgagaaccgcatgttgcttgatactcattttttacatgtgttaatgctctgctaatacatattgtatttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT