Sequence
atgc intronic sequence ATGC exonic sequenceTTAGGTGGATAAATTATTTGAGACCAGATTTAAAGAGAGGAGCTTTCTCTCAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26660.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26660.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g04820.1 (Oryza sativa), 5'ss of exon 3
TTAGGTGGATAAATTATTTGAGACCAGATTTAAAGAGAGGAGCTTTCTCTCAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttca-ttaatttgcaac--acatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtag
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TGAGGTGGATAAACTATCTGAGGCCTGACCTCAAGAGAGGTGCATTCTCTCAGGAGGAAGAAGACCTCATCATTGAGCTCCATGCTGTCCTTGGGAACAGgtaaacttcaatctcaattggcactaccaaaattcaggactagtaac-tgcaaggca-acactttgatacatcaactaacacagcccttctatttttccatgagaag---
upper sequence: AT5G26660.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G127490_T01 (Zea mays), 5'ss of exon 2
TTAGGTGGATAAATTATTTGAGACCAGATTTAAAGAGAGGAGCTTTCTCTCAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttcatt--aatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtag
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TGAGGTGGATAAACTATCTGAGGCCAGACCTCAAGAGAGGGGCATTCTCCCAAGACGAAGAAGACCTCATCATTGAGCTGCACGCTGTCCTTGGAAACAGgtaaatttaagcctgagaaatagtatcagaattcaagactgcatacatgcaaagcagcagttggtaattttagctgatattagcacttcacttttccatgagaag----Mapped 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|116417753|gb|EG460345.1|EG460345EST: CAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAG ATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAA
genomic: CAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttcattaat ... gaatatgtagATGGTCTCAAATCGCAACGCGGTTACCGGGAAGAACAGACAACGAGATCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTAGGTGGATAAATTATTTGAGACCAGATTTAAAGAGAGGAGCTTTCTCTCAAGACGAAGAAAGCTTGATCATTGAGCTCCATGCTGCATTAGGCAACAGgttcattaatttgcaacacatttatatagttttgaatttataatgtatattgtgtatatatatatatatgttaaaaaaaaaatctttggttcatattgaatatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC