Sequence
atgc intronic sequence ATGC exonic sequenceGACCGAAACGGAGGACAACAGCTTCGTCTCCGGAAACCCTTTCTCCTTCGCTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgtttcataacgctttcctaaaaaacagagcatttgcagacaaaaaaattctgttctgttctgtctcaattctcttaatttcgtcaatttgattc...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G22810.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G22810.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA10G00600.1 (Glycine max), 5'ss of exon 1
GACCGAAACGGAGGA--CAACAGCT-TCGTCTCCGGAAACCCTTTCTCCTTCGCTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgtttcataacgctttcctaaaaaacag-agcatttgcagacaaaaaaattctgttctgttctgtctcaattctcttaatttc--gtcaatttgattc
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---TGAAGTGGAAGAGTCTGCTGCAACTGTTTCTGGCAACCCTTTCTCCTTCGCTTCCTCTGAAACCTCTCAGATGATCATGGACCGCATCATGTCCCACTCCgta--tgttcccttaccctctcttcttctcttccattactcacttatgttgttatctt-ctgtattttgtttatatacaaataaattaagggcaatcaaattt
upper sequence: AT3G22810.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA02G00760.1 (Glycine max), 5'ss of exon 1
GACCGAAACGGAGGA--CAACAGCT-TCGTCTCCGGAAACCCTTTCTCCTTCGCTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgtttcataacgctttcctaaaaaacagagcatttgcagacaaaaaaattctgtt--ctgttctgtctcaattctcttaatttcgtcaatttgattc
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---TGAAGTGGAAGAGTCTGCTGCAACTGTTTCTGGCAACCCTTTCTCCTTCGCTTCTTCTGAAACCTCTCAGATGATCATGGACCGCATCATGTCCCACTCCgta--tgttcacttaccttctcttcttcttctgttccattcacttcatgctttctttcttaattactaccactcacttagaccatgtttggaaatccacctc
upper sequence: AT3G22810.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G28820.1 (Glycine max), 5'ss of exon 1
GACCGAAACGGAGGA---CAACAGCTTCGTCTCCGGAAACCCTTTCTCCTTCGCTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgtttcataacgctttcctaaaaaacagagcatttgcagacaaaaaaattctgttctgttctgtc----tcaattctcttaatttcgtcaatttgattc----------
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---CGAGGCCGAGGAAGCCTCCGCCACCGTCTCCGGGAACCCCTTTTCCTTCGCCTCCTCAGAAACCTCCCAAATGGTCATGGAACGAATCATGTCACAATCCgtaagccttccat--------cc----aaacacagcata-gtag-tattaattttttatttttccatgtcagggttgaatacttgaatcgtatcccagtgccctgcaaaaaagaMapped 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|116383340|gb|EG425932.1|EG425932EST: CTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCT CAGGAAGTGTCGCCACGAACATCTGGTCGGCTTTCTCATAGCAGCGGTCCT
genomic: CTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgttt ... gttattgcagCAGGAAGTGTCGCCACGAACATCTGGTCGGCTTTCTCATAGCAGCGGTCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACCGAAACGGAGGACAACAGCTTCGTCTCCGGAAACCCTTTCTCCTTCGCTTGCTCAGAAACTTCTCAGATGGTCATGGATCGTATCTTATCTCAGTCTgtaagtgtttcataacgctttcctaaaaaacagagcatttgcagacaaaaaaattctgttctgttctgtctcaattctcttaatttcgtcaatttgattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgtctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctctta