Sequence
atgc intronic sequence ATGC exonic sequenceTGTCAGCCCGGATTCTGTTTCACCTTCTAAAGATGATTTGCTGGAGGAAGCTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtattaataggattctatatctgttagttttgtttctggtttatgtaactgcaaatgcaatgtaatcgctttcagttcataataaatggcttcaacttttatgtatgacgtatgatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G41950.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G41950.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G35990.1 (Glycine max), 5'ss of exon 4
TGTCAGCCCGGATTCTGTTTCACCTTCTAAAGATGATTTGCTGGAGGAAGCTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtattaataggattctatatctgttagttttgtttctggtttatgtaactgcaaatgcaatgtaatcgctttcagttcataataaatggcttcaacttttatgtatgacgtatgatag
||| ||||| ||||| |||||| |||||||||| |||||| ||||| |||||||||||||| |||||||| || ||||| || || || ||| |||||||| ||| ||||| ||| | || | ||||| | | ||| |||||| | | | | | | |||||| |||||| || ||
TGTTAGCCCAGATTCCACTTCACCCTCTAAAGATGCTTTGCTTGAGGAGGCTTGTAAGAAGTATGATGAGGCCACTCGTCTTTGTCCCACACTGCATGATgtacgta-----aggat---atacttctttatgatgttttagatgaatg-ggtagcaaatttttagctag-gatctggatagggtgtaaatgagttcaacattggaatac------------
upper sequence: AT5G41950.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G31600.1 (Glycine max), 5'ss of exon 3
TGTCAGCCCGGATTCTGTTTCACCTTCTAAAGATGATTTGCTGGAGGAAGCTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtattaataggattctatatctgttagttttgtttctggtttatgtaactgcaaatgca-atgtaatcgctttcagttcataataaatggcttcaacttttatgtatgacgtatgatag
||| | || ||||| |||||| |||||||||| |||||| ||||| |||||||||||||| |||||||| || ||||| || || || ||| |||||||| ||| ||||| || | || | ||||| | || ||| |||||| | ||| | | | | ||||| |||||| || ||
TGTTATTCCAGATTCCACTTCACCCTCTAAAGATGCTTTGCTTGAGGAGGCTTGTAAGAAGTATGATGAGGCCACTCGTCTTTGTCCCACACTGCATGATgtacgta-----aggat---atccttctttatgatgttttagattaatg-ggtagcaaatttttaggtag--gatctggatagggtgcaaatgagttcaacattagaatac------------
upper sequence: AT5G41950.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv02s0025g02520.t01 (Vitis vinifera), 5'ss of exon 4
TGTCAGCCCGGATTCTGTTTCACCTTCTAAAGATGATTTGCTGGAGGAAGCTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtattaataggattctatatct-gttagttttgtttctggtttatgtaactgcaaatgc--aatgtaatcgcttt-cagttcataataaatggcttcaacttttatgtatgacgtatgatag
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TGTGGGTCCTGATTCTAGTTCACCTTCTAAAGATGCATTGCTTGAGGAGGCTTGTAAAAAATATGATGAGGCCACCCGTCTTTGCCCCACACTTCATGATgtatgtgtgcat----ttccattcttagattattttgttgaatgtttgggcaattgaggatatctaaaggaatggctataccaagcatgatcatca--tggaacat--------------------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|86051793|gb|DR347550.1|DR347550EST: CTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGAT GCTTACTACAACTGGGCTATTGCAATCTCTGATAGAGCAAAGATACGTGGT
genomic: CTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtatta ... cgtatgatagGCTTACTACAACTGGGCTATTGCAATCTCTGATAGAGCAAAGATACGTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTCAGCCCGGATTCTGTTTCACCTTCTAAAGATGATTTGCTGGAGGAAGCTTGTAAGAAGTACGATGAGGCAACCCGTCTCTGCCCGACGCTGTATGATgtatgtattaataggattctatatctgttagttttgtttctggtttatgtaactgcaaatgcaatgtaatcgctttcagttcataataaatggcttcaacttttatgtatgacgtatgatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT