Sequence
atgc intronic sequence ATGC exonic sequenceTGGAGCCATTTCGGGAGCTGTTTTCTCTATCGAAGTCTTTGAGTCATCTCTTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagctgagatcttcatttgaactactcatctgctctgtttttttccagatttgattcgaactgattcttgtttcttgttaatctttgtgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G35840.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G35840.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G23050.2 (Glycine max), 5'ss of exon 4
TGGAGCCATTTCGGGAGCTGTTTTCTCTATCGAAGTCTTTGAGTCATCTCTTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagc---tgagat---cttcatttg-aactactcatctgctctgtttttttccagatttgattcgaactgattcttg--tttcttgttaatctttgtgtag-------------------------------------------------------------
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AGGTGCCATATCAGGAGCTGTTTTTTCCATTGAAGTTTTTGAATCTTCCCTTGTTCTTTGGAAATCTGACGAATCTGGAATTGGGTGTGTCTTATACTTGgtgagtaagtgacatggctttcattttcaagaccttgtcaaaaataggatatataaa--ttgctactacacaattcttgagttctttgcttggccccatgagattttattgtcattttcactagcaagttgtgtagtctaatcattttaagttatgtaatgcag
upper sequence: AT4G35840.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G05000.1 (Glycine max), 5'ss of exon 2
TGGAGCCATTTCGGGAGCTGTTTTCTCTATCGAAGTCTTTGAGTCATCTCTTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagctgagatcttcatttgaactactcatctgctctgtttttttccagatttgattcga---actgattcttgtttcttgttaatctttgtgtag---
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AGGTGCCATATCAGGAGCTGTTTTTTCCATTGAAGTGTTTGAATCTTCCCTTGTTCTTTGGAAATCTGACGAATCTGGAATTGGGTGTGTCTTATACTTGgtgagttagtcacttggttttcattttcaagaccttgtcaaatatgggatatagaaattgctacacaattgctgagttcttgagagttataagattaggc
upper sequence: AT4G35840.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv00s0264g00020.t01 (Vitis vinifera), 5'ss of exon 2
TGGAGCCATTTCGGGAGCTGTTTTCTCTATCGAAGTCTTTGAGTCATCTCTTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagctgagatcttcatttgaactactcatctgctctgtttttttccagatttgattcgaactgattcttgtttcttgttaatctttgtgtag--------
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TGGAGCAATATCAGGAGCTGTTTTCTCTATTGAGGTCTTTGAATCTTCTCTTGTTCTCTGGCAATCTGATGAGTCAGGGATTGGATGTCTGCTCTACCTGgtgagc-aatttggcttcttgccccattgatcatatgctttaatgttaggggataagttgg-tgaattatggactctgggtgggaaaaggaagagaaatataMapped 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|86084376|gb|DR380135.1|DR380135EST: TTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTG ATTGATGTCATTGTTAGTCTGATAAGTGGTAGACTTGTGCGGGAACGAATA
genomic: TTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagctgag ... ctttgtgtagATTGATGTCATTGTTAGTCTGATAAGTGGTAGACTTGTGCGGGAACGAATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAGCCATTTCGGGAGCTGTTTTCTCTATCGAAGTCTTTGAGTCATCTCTTGTTCTTTGGAAATCTAATGAGTCACGTTTTGGATGTCTCCTCTACTTGgtgagctgagatcttcatttgaactactcatctgctctgtttttttccagatttgattcgaactgattcttgtttcttgttaatctttgtgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC