Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctgtccgaaagaacaatatgagggcttctgctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06010.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G28120.1 (Glycine max), 3'ss of exon 12
---------gtatgtctgtccgaaagaacaatatgagggcttct-gctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
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taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatgaagactatttaaacttgtcgtt-tgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
upper sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G39630.1 (Glycine max), 3'ss of exon 9
---------gtatgtctgtccgaaagaacaatatgagggcttct-gctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
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taaaatattccacgccactgcttttttaccatgtccatgctccttgggtcctattgctaaataatggagactatttgaacttgtcgtt-tgatttgtgcagCCCAGGACAGAAGAGAAATGTTAGAAGAGATTATGCGTAGAGGTACAAGCTCACTTGGGACAGATGTGCCTAGTGAGAGAGAAATTAACCGCCTTGCTGC
upper sequence: AT3G06010.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G00640.2 (Glycine max), 3'ss of exon 11
---gtatgtctgt-ccgaaagaacaatatgagggcttctgctttctatatc--gatatggtaatct-cttga---tgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
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agaacattcctgtgccaccatatcagtctcctgtgttgggcttcctatgtcttgcgaaaatgaactgtttgaacgtgtgatatttttttatttattg-cagCACAAGACAGAAGAGAAATGTTGCAGGAGATTATGCGTAGAGGTACTAGCTCACTTGGTACGGATGTCCCGAGTGAGAGAGAAATTAACCGCCTTGCGGCMapped 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|124956979|gb|EL031854.1|EL031854EST: AACACAACTTCCACTG CACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCT
genomic: AACACAACTTCCACTGgtatgtctgt ... atatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
tcttgat putative branch site (score: 4)
tttttgtgattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctgtccgaaagaacaatatgagggcttctgctttctatatcgatatggtaatctcttgatgtggtttttgtgattatatcaacagCACAAGACAGAAGAGAGATGCTTGAAGAGATTATGCGTAAAGGAACAAGCTCGCTCGGGACAGATGTCCCCAGTGAGAGAGAAATAAACCGGCTAGCGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG