Sequence
atgc intronic sequence ATGC exonic sequenceAATCCGTTGGATGAAACATCAATCGCTTGTATCACACGCGATTTGCTTCATGCTGTTGAATATCTGCATAATGAGGGAAAGATCCACAGAGACATTAAAGgtttgtgtgcattgatagaagtattgttttttatttgttgaaatgtgttttaactgcttggtacagaaaatcactttcttcctcttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15220.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G34970.1 (Glycine max), 5'ss of exon 6
AATCCGTTGGATGAAACATCAATCGCTTGTATCACACGCGATTTGCTTCATGCTGTTGAATATCTGCATAATGAGGGAAAGATCCACAGAGACATTAAAGgt-ttgtgtgcattgatagaagtattg--ttttttatttgttgaaatgtgttttaactgcttggtacagaa------aatc-----actttcttcctcttttgcag------------------------------------------
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CCTCCCCTTGATGAAATGTCAATTGCTTGCATTCTACGTGACTTGCTGCATGCTGTTGATTATCTACATAGTGAAGGAAAAATTCATAGAGACATTAAAGgtatcagaagcaaccccattgccattgaatttttcgtactttgaaacttcttttctcttgtctatatgtagttttgtagtcatggaattttcttttttgtttttacattagctttgtaattgacagcatttacatgttaattatacag
upper sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 6
AATCCGTTGGATGAAACATCAATCGCTTGTATCACACGCGATTTGCTTCATGCTGTTGAATATCTGCATAATGAGGGAAAGATCCACAGAGACATTAAAGgtttgtgtgcattgatagaagt-attgttttttatttg-ttgaaatgtgttttaactgcttggtacagaaaatcactttcttcctcttttgcag------------------------------------------------
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CCTCCACTTGATGAAATGTCAATAGCTTGCATTCTACGTGATTTGCTTCATGCAATTGATTACCTTCATAATGAAGGAAAAATTCATAGAGACATTAAAGgt--atcaacagtgacactctccattgtctttcctgtgctttgaagctgcttcccccctcccataattagaatttttataatcgtggacttcaatttttttattagctctaaattcacagaatttgcatatcaattttgcag
upper sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA06G36130.2 (Glycine max), 5'ss of exon 5
AATCCGTTGGATGAAACATCAATCGCTTGTATCACACGCGATTTGCTTCATGCTGTTGAATATCTGCATAATGAGGGAAAGATCCACAGAGACATTAAAGgt-ttgtgtgcattgatagaagtattgttttttatttg--ttgaaatgtgttttaactgcttggtacagaaaatcactttcttcctcttttgcag------------------------------------------------
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CCTCCACTTGATGAAATGTCAATTGCTTGCATTCTACGTGATTTGCTTCATGCAATTGATTACCTACATAATGAAGGAAAAATTCATAGAGACATTAAAGgtatcaacagtgacattctctccattgtttttcctgtgctttgaaacagctttccccctctcataattagaaatt-ttataatcatggacttcaattttttattagctctatcattcatagaatttcaatatcaattttgcagMapped 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|86073441|gb|DR369198.1|DR369198EST: GCTGTTGAATATNTGCATAATGAGGGGAAAGATCCNCAGAAACNTTAAAG CTGCGAATNTTTTGTTGAGCGAAAATGGCGAATGTTAAG
genomic: GCTGTTGAATATCTGCATAATGAGGG-AAAGATCCACAGAGACATTAAAGgtttgtgtgc ... tcttttgcagCTGCGAATATTTTGTTGAGCGAGAATGGCGA-TGTTAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATCCGTTGGATGAAACATCAATCGCTTGTATCACACGCGATTTGCTTCATGCTGTTGAATATCTGCATAATGAGGGAAAGATCCACAGAGACATTAAAGgtttgtgtgcattgatagaagtattgttttttatttgttgaaatgtgttttaactgcttggtacagaaaatcactttcttcctcttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT