Sequence
atgc intronic sequence ATGC exonic sequenceGTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G12360.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G012942_T01 (Zea mays), 5'ss of exon 3
GTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtag------------
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GTTCTAATCATGGACAAACTTACTGTCAAGATAATGTCATTTTCATGCAAGATGGCAGATATCACAGAAGAAGGGGTTTCATgtaag--tggctcatctaaatatgttctgttgtgttatatagttatttattatgagatttgttg--tatccatagatctcaattttgttttttacactcaataa
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G03970.1 (Glycine max), 5'ss of exon 4
GTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaat-----gaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagat----attatttctctgtag
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GTACTAATAATGGACAAACTTACTGTAAAGATAATGTCTCATTCTTGCAAGATGGCTGATATCACTGATGAAGGCGTTTCATgtaagaatcccaagattgattcttaaacaataagtaattatttttcttctgtccactgtcagtgaaagactttccatgaatttttcatgatttgggtgta-
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G14450.1 (Glycine max), 5'ss of exon 3
GTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaat-----gaagtatttttgtacaaattctagt----tccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtag
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GTACTCATAATGGACAAACTTACTGTGAAGATAATGTCTCATTCTTGCAAGATGGCTGATATCACTGATGAAGGTGTTTCATgtaagaatcacaagattgattcttgagtaataagtaatcatttttcttctgtccactgtcagagaaagactttccatgatttggatgtaatgccatgctt-
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G03230.1 (Glycine max), 5'ss of exon 3
GTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgag-aatgaagtatttttgtac-aaattctagtt--ccatatgatactttatttgggaataacttaat-tgtcgtaagatattatttctctgtag---
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GTATTAATAATGGATAAACTTACTGTGAAGATAATGTCTCACTCATGCAAGATGACTGATATCACTGATGAAGGTGTTTCATgtaagcagtcatttttctttctattaagaaccaataaattgttttatcccataatttgtattgttttaatgtgccatgatgttttaatagtaaatgacaaMapped 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|164194439|gb|EL971670.1|EL971670EST: AATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCAT TGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATG
genomic: AATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaatga ... ttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTACTAATCATGGACAAACTTACTGTCAAGATAATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG