Sequence
atgc intronic sequence ATGC exonic sequenceAAAAAGGATAAACATGCGAGATACGGGCGCTTGAAAAACATCAAGCTGAGTTTTGTTGGACATTCAATTGGTAACGTCATCATCAGAGCTGCAATAGCTGgtatgttcttagaatctctcagacaatgtttaaaacggttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09980.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09980.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os12g06800.1 (Oryza sativa), 5'ss of exon 11
AAAAAGGATAAACATGCGAGATACGGGCGCTTGAAAAACATCAAGCTGAGTTTTGTTGGACATTCAATTGGTAACGTCATCATCAGAGCTGCAATAGCTGgtatgttcttagaatctctcagacaatgtttaaaacggttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcag
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AAAGTTGATAAGCTTGCAAAGTACGGAGGCTGCAAAGAATTGAAGCTTAGTTTTGTTGGCCATTCCATTGGGAACGTTATCATCAGAACTGCACTTGCAGgtattatcc--aacttactcaataaattccttccagg-----caagttcatctcgatggtgctaact-----caatctttgcatgttgaatag
upper sequence: AT1G09980.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA04G09330.1 (Glycine max), 5'ss of exon 1
AAAAAGGATAAACATGCGAGATACGGGCGCTTGAAAAACATCAAGCTGAGTTTTGTTGGACATTCAATTGGTAACGTCATCATCAGAGCTGCAATAGCTGgtatgttcttagaatctctcagacaatgtttaaaacggttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcag
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AAAATGGACAAAGCATCAAGATATGGGAGTCTGGGAGATATTAGGCTAAGTTTTGTTGGACATTCAATTGGTAATCTCATTATAAGAACAGCGATAGCAGgtaggtcat---aattgtggaagcaatgct-------gttc----atcagtttgacatttagtgctaagtcttgtcctgtgt-tttgcag---
upper sequence: AT1G09980.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA15G05480.1 (Glycine max), 5'ss of exon 15
AAAAAGGATAAACATGCGAGATACGGGCGCTTGAAAAACATCAAGCTGAGTTTTGTTGGACATTCAATTGGTAACGTCATCATCAGAGCTGCAATAGCTGgtatgttcttagaatctctcagacaatgtttaaaacggttcgt--aaatcggttttggtgttaatcattattcccgacttatgtatttgttgcag
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AAGATGGATAAAGCTTCAAGAGTTGGAAACTTAAAAGATATCAAGCTTAGCTTTGTTGGCCATTCTATTGGGAATCTCATCATCAGAGCTGCTTTGGCAGgtatttacatatagtttt--gaacaatggagaataatacccatcaaaatctaatattgggacagtaat-gtgccttttttattt-ttaatttcagMapped 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|125272197|gb|EL286282.1|EL286282EST: TCATCAGAGCTGCAATAGCTG ATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTT
genomic: TCATCAGAGCTGCAATAGCTGgtatgttctt ... tttgttgcagATAGTTTGATGGATCCATACAGGAAGTATTTTCATACATATATATCGCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAAAGGATAAACATGCGAGATACGGGCGCTTGAAAAACATCAAGCTGAGTTTTGTTGGACATTCAATTGGTAACGTCATCATCAGAGCTGCAATAGCTGgtatgttcttagaatctctcagacaatgtttaaaacggttcgtaaatcggttttggtgttaatcattattcccgacttatgtatttgttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC