Sequence
atgc intronic sequence ATGC exonic sequencegtgagaccctttgacatatcctgtataatttcccatgacctgactagttgtcctaaatgcagatatattccaatactcacgttattctggctgaaaattatcagatgttatataaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATCAATTTGTGGGAGGGGAGCTATTTTTCAGAGGCACACGGTGTGAAAAACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G18210.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G31060.1 (Glycine max), 3'ss of exon 5
gtgagaccctttgacatatcctgtataatttcccatgacctgactagttgtcctaaatgcagatatattccaatactcacgttattctggctgaaaattatcagatgtta--tataaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATCAATTTGTGGGAGGGGAGCTATTTTTCAGAGGCACACGGTGTGAAAAACA
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--------ttttgatg-gtgctgggt----tcatattatatg-ctggtt------aatacagctgcatttc-----tgatgttaatatgtctgatattgtacaactaagagtcttgcatctgcagGTTTCCATGTGGATGACTCAGAAGTAACCTTAAATGTTTGTTTGGGTAAGCAATTTTCTGGAGGGGAATTGTTTTTTCGGGGCATACGATGTGAGAAACA
upper sequence: AT3G18210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G11180.1 (Glycine max), 3'ss of exon 5
gtgagaccctttgacatatcctgtataatttcccatgacctgactagttgtcctaaatgcagatatattcc-aatactcacgttattctggctgaaaattatcagatgttatataaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATCAATTTGTGGGAGGGGAGCTATTTTTCAGAGGCACACGGTGTGAAAAACA
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--------ttttgatg-atgct----aggttcatattatatg-ctggtt------aatacatctgcattcctgatgttaatatgtctgatgttgtaca--actaagagtcttgca--tctgtagGTTTCCATGTGGATGACTCAGAAGTAACCTTAAATGTTTGCTTGGGTAAGCAATTTTCTGGAGGGGAATTGTTTTTTCGGGGTGTACGATGTGAGAAACAMapped 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|164099519|gb|ES117980.1|ES117980EST: TGGGAATGATAGGGATGTTGATTTAG GCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATC
genomic: TGGGAAAGATAGGGATGTTGATTTAGgtgagaccct ... aaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccaatactcacgttattctggctgaaaattatcagatgttatataaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATCAATTTGTGGGAGGGGAGCTATTTTTCAGAGGCACACGGTGTGAAAAACA
tactcac putative branch site (score: 1)
ttttc putative PPT
tgaaaattatcagatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaccctttgacatatcctgtataatttcccatgacctgactagttgtcctaaatgcagatatattccaatactcacgttattctggctgaaaattatcagatgttatataaattttcagGCTTTCATGTGGATGATTCAGAAGTAACGCTGAATGTTTGTTTGGGTAATCAATTTGTGGGAGGGGAGCTATTTTTCAGAGGCACACGGTGTGAAAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT