Sequence
atgc intronic sequence ATGC exonic sequenceTTGTGATCCTCACTCCATTTTCTATTGCCGTGGAAGGTCCTCAAATGTGGGCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatctaaaaaccaaatcaataatctttaattgtttgttaagttttatagactccaactcaaatgactatgagtggattggtatatattgctttagttcccttctaacttaagatataagattctaacttaatgtgttgtttttgttttttgaatcaatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G61800.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G61800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g08840.2 (Oryza sativa), 5'ss of exon 4
TTGTGATCCTCACTCCATTTTCTATTGCCGTGGAAGGTCCTCAAATGTGGGCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatctaaaaaccaaatcaataatctttaattgtttgttaagt--tttatagactccaactcaaatgactatgagtggattggtatatattgctttagttcccttctaacttaagatataagattctaacttaatgtgttgtttttgttttttgaatcaatag
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TTGTCATACTCACACCATTCGCTATCGCTATGGAGGGCCCTCAAATGTGGGCTGCTGGTTGGCAAAAGGCTCTTGCGGAAGTTGGTCCCAATGTTGTCTGgtaagcaataaaa--taaaccaagcatcctttaatttttcttcagcaattgctattttgtagcccgtagttttgtacttgtgtta-cataggacaactcagaa---------------------------------------------------------------
upper sequence: AT1G61800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G431314_T01 (Zea mays), 5'ss of exon 4
TTGTGATCCTCACTCCATTTTCTATTGCCGTGGAAGGTCCTCAAATGTGGGCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatctaaaaaccaaatcaataatctttaattgtttgttaagttttatagactccaactcaaatgactatgagtggattggtatatattgctttagttcccttctaacttaagatataagattctaacttaatgtgttgtttttgttttttgaatcaatag
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TGGTCATACTGACTCCATTTGCTATAGCTATGGAAGGTCCTCAGATGTGGGCTGCTGGTTGGCAAAAGGCTGTTGCAGAAGTTGGACCCAATGTTGTCTGgta--aacaagaatttta--cagttttccttgcatagttgccaagt---gtggtctcca-cccacattacatgagatggcttgaaacactcttcat--gtttttttttat------------------------------------------------------
upper sequence: AT1G61800.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G180720_T02 (Zea mays), 5'ss of exon 4
TTGTGATCCTCACTCCATTTTCTATTGCCGTGGAAGGTCCTCAAATGTGGGCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatctaaaaaccaa-atcaataatctttaattgtttgttaagttttatagactccaactcaaatgactatgag-tggattggtatatattgctttagttcccttctaacttaagatataagattctaacttaatgtgttgtttttgttttttgaatcaatag
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TGGTCATACTGACTCCATTTGCTATAGCTATGGAAGGCCCTCAAATGTGGGCTGCTGGTTGGCAAAAGGCTCTTGCAGAAGTTGGACCCAATGTTGTCTGgta--aacaagaatttaatatttacagttttccttgcatagttgtcaagtatggtctcca-ctcacatt-cgatgagatggctcgaaacacttcgggcatgttt--------------------------------------------------------------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|116447970|gb|EG490562.1|EG490562EST: GCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTG GTGGGTAGTGGCACAAAGTGTGTTTTACCATTTGTACAATCAGGTCTCATA
genomic: GCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatcta ... gaatcaatagGTGGGTAGTGGCACAAAGTGTGTTTTACCATTTGTACAATCAGGTCTCATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTGATCCTCACTCCATTTTCTATTGCCGTGGAAGGTCCTCAAATGTGGGCTGCTGGTTGGCAAAATGCGGTTTCTCAAGTCGGACCAAACTTTGTCTGgtatgatctaaaaaccaaatcaataatctttaattgtttgttaagttttatagactccaactcaaatgactatgagtggattggtatatattgctttagttcccttctaacttaagatataagattctaacttaatgtgttgtttttgttttttgaatcaatag
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT