Sequence
atgc intronic sequence ATGC exonic sequenceGGATACTTTACCTTCTGAGTATGATTCAAGAGTAAAAGCAATGGAGGTCGACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgctagttgatgactctcctgtttcatgtttccttagtttttagtatctctggtacaatatttgatgttggtgactctcctgtttttgtaattaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09100.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 5'ss of exon 4
GGATACTTTACCTTCTGAGTATGATTCAAGAGTAAAAGCAATGGAGGTCGACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgc----tagttgatgactctcc--tgtttcatgtttcctt--agtttttagtatctctggtacaatatttgatgttggtgactctcctgtttttgtaattaaacag------------------------------------------------------------------------------
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GGACACACTGCCATCAGAGTATGATTCACGAGTAAAGGCAATGGAGGTGGATGAAAAACCCACAGAGGACTACAATGATATTGGAGGTCTTGAAAAGCAGgtacattgcttaataaatgttgaaagttcagtgttcctttttggaactggaaatattgacaaccatctctttagggaataatagagcaatttgtatcgcttcatgcatcaagcatgttacatttccatccatcttttccttttcataatttatcattctttccatcctattttattgaatatag
upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G29250.1 (Glycine max), 5'ss of exon 4
GGATACTTTACCTTCTGAGTATGATTCAAGAGTAAAAGCAATGGAGGTCGACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgctag--ttgatgactctcctgtttcat-gtttccttagtttttagtatctctggtacaatatttgatgttggtg-actctcctgtttttgtaattaaacag
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GGATACCTTGCCTTCTGAGTATGATTCTAGAGTTAAGGCCATGGAAGTTGATGAAAAGCCAACCGAGGACTACAATGACATTGGTGGATTAGAGAAGCAGgtgagctttggttcttgccttaatttattgaagcccttgtttgggttagtt--aatgcaatctctcaggtcatttcaataacttggtcttcc---tcaacag
upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g02260.t01 (Vitis vinifera), 5'ss of exon 4
GGATACTTTACCTTCTGAGTATGATTCAAGAGTAAAAGCAATGGAGGTCGACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgctagttgatgactctcctgtttcatgtttccttagtttttagtatctctggtacaatatttgatgttggtgactctcctgtttttgtaatta-aacag
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AGATACTTTGCCATCTGAGTATGATTCTCGAGTAAAGGCTATGGAGGTTGATGAAAAACCAACAGAAGACTACAATGATATCGGAGGGCTGGAGAAGCAGgcaagtt--tcaattttgtg---catattttat-ggaagtggttgttgcttgtccgatttttgatactttcaactaaaacttgcctctaattacaacagMapped 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|125136795|gb|EL176825.1|EL176825EST: ACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAG ATACAAGAACTTGTTGAAGCCATTGTGTTGCCAATGACTCATAAAGAGCAG
genomic: ACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgctagttgat ... aattaaacagATACAAGAACTTGTTGAAGCCATTGTGTTGCCAATGACTCATAAAGAGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATACTTTACCTTCTGAGTATGATTCAAGAGTAAAAGCAATGGAGGTCGACGAAAAACCTACTGAAGACTACAATGATATAGGGGGACTAGAAAAACAGgctagttgatgactctcctgtttcatgtttccttagtttttagtatctctggtacaatatttgatgttggtgactctcctgtttttgtaattaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA