Sequence
atgc intronic sequence ATGC exonic sequenceTATGGCTCAGGCTGTAGAAGAATGGTATAAACAGATGCCGATTATCACTCGCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgcttgcttgcttattcgcgaatcttttttggggttctctgaaattctctaaattagggtttcatattctgattgtttttgttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G04860.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G04860.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA15G11350.3 (Glycine max), 5'ss of exon 1
TATGGCTCAGGCTGTAGAAGAATGGTATAAACAGATGCCGATTATCACTCGCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgcttgcttgcttattcgcgaatcttttttggggttc----tctgaaattctctaaattagg-gtttcatattctgattgtttttgttttgcag-----
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AATGGCTCAAGCGGTTGAAGAATGGTATAAGCAGATGCCTGTCATCACGCGCTCTTATCTCACCGCTGCTGTTGTCACCACCATCGGATGTTCCCTTGATgtaatcccctttcttcgcactctca----cttttagggtttccaattttatttttttatgaattcggtgcgtctgatttgggtttattcttttttaatatctcg
upper sequence: AT4G04860.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA13G27600.1 (Glycine max), 5'ss of exon 1
TATGGCTCAGGCTGTAGAAGAATGGTATAAACAGATGCCGATTATCACTCGCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgcttgcttgcttattcgcgaatcttttttggggttctc--tgaaattctctaaattagggtttcatattctgattgtttttgttttgcag----------
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AATGGCTCAAGCGGTTGAAGAATGGTATAAGCAGATGCCCGTCATCACGCGCTCCTATCTCACCGCTGCTGTTGTCACCACTATCGGATGCTCCCTTGATgtaaaccccctttt-ttcatcctc---tcacttttagggtttccattattattttctaatttatttttatgaattcgg--tgcgtctaatttggatacattcattt
upper sequence: AT4G04860.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv00s0704g00010.t01 (Vitis vinifera), 5'ss of exon 1
TATGGCTCAGGCTGTAGAAGAATGGTATAAACAGATGCCGATTATCACTCGCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgcttgctt-------gcttattcg-cgaatcttttt-tggggttctctgaaattctctaaattag-ggtttcatattctgattgtttttgttttgcag
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AATGGCTCAAGCCGTTGAAGAATGGTACAAGCAGATGCCAATCATCACCCGCTCTTATCTCACCGCCGCAATCGTCACCACCATCGGTTGCTCTCTCGACgtatgcctctgtatctttcaggctttttcgatgtatcggtgtgcattattcttgtttattcccttgtgtggagggttgatagggtttttgttttcgatgt----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|164163063|gb|ES094775.1|ES094775EST: GCTCGTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGAT ATCATATCTCCATATAACCTTTATTTGAATCCGACACTTG
genomic: GCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgctt ... tgttttgcagATCATATCTCCATATAACCTTTATTTGAATCCGACACTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGGCTCAGGCTGTAGAAGAATGGTATAAACAGATGCCGATTATCACTCGCTCTTATCTCACGGCGGCTGTTATCACCACCGTCGGATGTTCCCTCGATgtacgtgcttgcttgcttattcgcgaatcttttttggggttctctgaaattctctaaattagggtttcatattctgattgtttttgttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT