Sequence
atgc intronic sequence ATGC exonic sequenceGCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacctcacagtttcatctatcttcctacgtttttgtttgaatgcataaatggagatcaacataatagacttcttgatgagaaagcatgt...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G57650.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM5G878139_T02 (Zea mays), 5'ss of exon 2
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgt-acataatttcacct-cacagtttc-----atctatctt-cctacgtttt----tgtttgaatgcat-------aaatggagatcaacataatagacttcttgatgagaaagcatgt----
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GTAAAGAGCATGCACTCGTCATATCAAATCATCGAAGTGATATTGATTGGCTTATTGGATGGATATTGGCCCAGgttatctcccatcttctgtatagttgttagagatttactttgctcacagttcatactgtttagatttatttgtattagctgataaataatatgagactcttgttttctggtccatgtgttcag
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G31320.1 (Glycine max), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacct--cacagtttcatctatct-tcctacgtttttgtttgaatgcataa-----atggagatcaacataatagactt-cttgatgagaaagcatgt
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GTAAAGAGCATGCTCTTGTCATATCCAATCACAGAAGTGACATTGATTGGCTTGTTGGATGGGTTTTAGCTCAGgt-tattatcttatttagtataacttctttcacatattcaactcaataaaattaacacagaattcacatatgtattagcatgagttacttatttcatttga--------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G29600.1 (Glycine max), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacctcacagtttcatctatcttcctacgtttttgtttgaa-tgcataaatggagat-caacataatagacttcttgatgagaaagcatgt-----
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GTAAAGAGCATGCACTTGTGATAAGCAATCACAGAAGTGATATTGATTGGCTTGTTGGATGGGTTTCAGCTCAGgtg-attgtcttatttga---tctgatct---tttccacatgttcaatgaaagcaaattaatacagattcaactgtgtattaatacaagtaatttattttattcata
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G32420.1 (Glycine max), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacata----atttcacctcacagtttcatctatcttcctacgtttttgtttgaatgcataaat--ggagatcaacataa-tagacttcttgatgagaaagcatgt
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GTAAAGAGCATGCACTTGTGATAAGCAATCACAGAAGTGATATTGATTGGCTTGTTGGATGGGTTTCAGCTCAGgtgattgtcttagttggtctgatattttccacatcttcaatgaaagcaaattagcacaaattcatttgtgtattaatacaagtaatttattttattcgta-------
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G12560.1 (Glycine max), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacct--cacagtttcatctatct-tcctacgtttttgtttgaatgcataaatggagatcaacataatag-acttcttgatgagaaagcatgt
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GTAAAGAGCATGCTCTTGTTATCTCCAATCACAGAAGTGACATTGATTGGCTTGTTGGATGGGTTTTAGCTCAGgtg-attatcttatttagtataacttctttcacatattcaacacaacaaaattaacaca-gaattcacat--atatattagcatgagttgtttatttcatttgt
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0007g08110.t01 (Vitis vinifera), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataat--ttcacctcacagtttcatctatcttcctacgtttttgtttgaatgcataaatggagatcaacataatagacttcttgatgagaaagcatgt
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GTAAAGAACATGCACTTCTTATATCAAACCACAGAAGTGACATTGATTGGCTTGTTGGATGGGTTTTGGCTCAGgtgcacactgctatattttgcaactt-acccatgcatatgtacatttgctctctctctctctctctcacacataca-cacacacacacacacacacacacac
upper sequence: AT3G57650.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S72_209V6.1 (Physcomitrella patens), 5'ss of exon 4
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacct---cacagtttcatctatcttc--ctacgtttttgtttgaatgcataaat---ggagatcaacataatagacttcttgatgagaaagcatgt---------------------
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GAAAGGAGCACGCATTACTCATTTGTAATCACCGCAGTGACATTGATTGGCTCGTAGGATGGATTATTGCCCAGgttatttgtttcccttgtacccggtgaaaacccttggcaattgtgggcttttagggattcaatcgtctagggggtatgcgctgattatgttttgttggaactgaattgagtatttcttgggcgttgcagMapped 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|125278206|gb|EL292291.1|EL292291EST: TTGGCTTGTGGGATGGATTCTGGTCTCAG CGGTCAGGTTGCCTGGGAAGCGCATTAGCTGTAATGAAGAAGTCTTCCAA
genomic: TTGGCTTGTGGGATGGATTCTGG-CTCAGgtacataatt ... ttccttgcagCGGTCAGGTTGCCTGGGAAGCGCATTAGCTGTAATGAAGAAGTCTTCCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAAGAACATGCTCTTGTCGTTTGTAATCACCGAAGTGATATTGATTGGCTTGTGGGATGGATTCTGGCTCAGgtacataatttcacctcacagtttcatctatcttcctacgtttttgtttgaatgcataaatggagatcaacataatagacttcttgatgagaaagcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcacctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaagca