Sequence
atgc intronic sequence ATGC exonic sequenceGTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagttaattcgttccgttccctccatattagcatctaatgatctaaattcattaaaaacactcttctggtgttattgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09840.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09840.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA12G28730.1 (Glycine max), 5'ss of exon 11
GTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagttaattcgttccgttccctccatattagcatctaatgatctaaattcattaaaaacactcttctggtgttattgtag--------
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GTCTTTCAGAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaatgtctccatttttt----atttacttttctcaccttggatattataaaattattttactcatgatattatggcactgcag
upper sequence: AT1G09840.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 10
GTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagttaattcgttccgttccctcca----tattagcatctaatgatctaaattcat-taaaaacactcttctggtgttattgtag--------
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GTTTTTCAGAAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCAgtaagttgaatgtctccatttttttaaaaattatttacttttc-tcacctgggataatataaaattatttgacccatgatattatgacactgcag
upper sequence: AT1G09840.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA16G00400.2 (Glycine max), 5'ss of exon 10
GTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagttaattcgttccgttccctcca----tattagcatctaatgatctaaattcat-taaaaacactcttctggtgttattgtag--------
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---------AAACGTTTACCCCCAGAAGCAGTGGACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCAgtaagttgaatgtctccatttttttaaaaattatttacttttc-tcacctgggataatataaaattatttgacccatgatattatgacactgcag
upper sequence: AT1G09840.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 10
GTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagtt-aattcgttc-----cgttccctc---catattagcatcta-----atgatctaa-----attcattaaaaa-cactcttctggtgttattgtag
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GTCTTCCAAAAACGTTTACCTCCAGAAGCTGTGGATTTAGTTTGTAGGTTTTTCCAGTACTCCCCCAATCTGCGATGCACAGCTgtaagtttaatacttttttaagcattccttctcacaaatttgcctgagtggaggtgatctaatggtaaagcatgaatgatcatttctctattgatattgcagMapped 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|124789003|gb|EH878682.1|EH878682EST: CAATTTGAGATGTACAGCT TTGGAAGCTTGTATCCATCCGTTATTTGATGAGCTAAGGGACCCAAACACT
genomic: CAATTTGAGATGTACAGCTgtaagttaat ... gttattgtagTTGGAAGCTTGTATCCATCCGTTATTTGATGAGCTAAGGGACCCAAACACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGTTCCAAAAACGTTTGCCACCAGAAGCAGTTGATCTTCTTTGTAGGTTCTTCCAATATTCCCCCAATTTGAGATGTACAGCTgtaagttaattcgttccgttccctccatattagcatctaatgatctaaattcattaaaaacactcttctggtgttattgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG