Sequence
atgc intronic sequence ATGC exonic sequenceCAAAAACATCACACGAACCGTCAAAAACTATGCCGACTCCGTCGTCCAGCACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctcctttccttttaattattcccatttctaattagtatttgggtcttatttttctagattccagttttgattttggtattaagggcttttattacaatacagttgtaattatgacacaacagttgcattactttaggactagagtgaataatccggactgtaactttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G13560.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G13560.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G38530.1 (Glycine max), 5'ss of exon 1
CAAAAACATCACACGAACCGTCAAAAACTATGCCGACTCCGTCGTCCAGCACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctcctttccttttaattattcccatttctaattagtatttgggtcttatttttctagattccagttttgattttggtattaagggcttttattacaatacagttgtaattatgacacaacagttgcattactttaggactagagtgaataatccggactgtaactttgcag
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AAACAACCTCACTCGAACCGTCAAGAACTACGCCGACACCGTCGTTCAACACGCCGGCCAAGCCGTCGCCGAGGGCGCCAAAATCCTTCAGGATCGCATTgtaaattccccattcctctt--ttatcttc-tctcacaccacc-tttagtttttaatta---atgcaccagtttgtattt--atactcactacactgaaaccaataacc---------------------------------------------------------------------
upper sequence: AT5G13560.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA10G43840.1 (Glycine max), 5'ss of exon 1
CAAAAACATCACACGAACCGTCAAAAACTATGCCGACTCCGTCGTCCAGCACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctcctttccttttaattattcccatttctaattagtatttgggtcttatttttctagattccagttttgattttggtattaagggcttttattacaatacagttgtaattatgacacaacagttgcattactttaggactagagtgaataatccggactgtaactttgcag
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AAACAACCTCACTCGCACCGTCAAGAACTACGCCGACACCGTCGTTCAACACGCCGGCCAAGCCGTGGCCGAGGGCGCCAAAATCCTACAGGATCGCATTgtaaattccacttttatcttctctcacaccacctttaatttttaatcaatgcatcagtttgtat-ttatagtcactactctgaaaccaataaccacccctt-----------------------------------------------------------------------------
upper sequence: AT5G13560.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv13s0067g03850.t01 (Vitis vinifera), 5'ss of exon 1
CAAAAACATCACACGAACCGTCAAAAACTATGCCGACTCCGTCGTCCAGCACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctcctttccttttaattattccc-atttctaattagtatttgggtcttatttttctagattccagttttgattttggtattaagggcttttattacaatacagttgtaattatgacacaacagttgcattactttaggactagagtgaataatccggactgtaactttgcag
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GAACAACCTCACTCGCACCGTTAAGAACTACGCCGACTCCGTCGTCCAACATGCCGGTCAGGCCGTTGCTGAGGGCGCCAAAATTCTTCAAGATCGCATTgtaatttgcgttatttctatgcttctctttgattttgaaccggaaatttggactaatttgg--aatttcttgcgatgttttctgctgtaattgggagtattc-----------------------------------------------------------------------------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|163988617|gb|ES110558.1|ES110558EST: ACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATT GGTGTTGGGGCTTATAAGAGTGTTCATCAGACAATTC
genomic: ACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctc ... aactttgcagGGTGTTGGGGCTTATAAGAGTGTTCATCAGACAATTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAAAACATCACACGAACCGTCAAAAACTATGCCGACTCCGTCGTCCAGCACGCTGGCCAAGCCGTCGCTGAAGGAGCCAAATTGTTCCAAGACCGCATTgtaatttctcctttccttttaattattcccatttctaattagtatttgggtcttatttttctagattccagttttgattttggtattaagggcttttattacaatacagttgtaattatgacacaacagttgcattactttaggactagagtgaataatccggactgtaactttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG