Sequence
atgc intronic sequence ATGC exonic sequenceTATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaactggtttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03610.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G00740.2 (Glycine max), 5'ss of exon 6
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaatttta-gctctg-gtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaactggtttttgtag-------------
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TGTGGAAATTGGCTTACCCTGACAGGGAGCTTCCTTCGCTTAAATCAGACCTTTGGAAGGAAATGGGATGGCAAGGTTCAGACCCTTCAACAGATTTTAGgtgtgcaatctaaagcaatgcattaactttaaggggagagggtgggagcttgggtagggatagggttttattcagcaacaggtcaaagactaaaaatatt
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G29990.2 (Glycine max), 5'ss of exon 7
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaactggtttttg--tag--------------------
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TGTGGAAATTGGCTTACCCGGACAGGGAGCTTCCTTCACTTAAATCAGACCTTTGGAAGGAAATGGGATGGCAAGGTTCTGACCCTTCAACAGATTTTAGgtatctggtccaaa-----gcaatgcat-taactttaagaagagagggtgggatagtgttttatt-cagcaacaggtcaaagactaaaaatattatctgagaccatt
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv14s0006g02040.t01 (Vitis vinifera), 5'ss of exon 1
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaac-tggtttttgtag------------
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TTTGGAACTTAGCTTATCCTGGTAGGGAGCTCCCCTCTCTTAAGTCAGAGCTCTGGAAGGAGATGGGTTGGCAAGGTACTGATCATTCGACAGATTTTAGgtgggtag----aggacta--tatataaa-catctggtatttacagacttctcttatgttcatgtgtattaatgtgaatttggttaaacacattttag
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv08s0056g00790.t01 (Vitis vinifera), 5'ss of exon 6
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaac-tggtttttgtag------------
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TCTGGAGCTTAGCTTATCCTGGTAGGGAGCTCCCCTCTCTTAAGTCAGAGCTCTGGAAGGAGATGGGTTGGCAAGGTACTGATCCTTCGACAGATTTTAGgtgggtag----aggactatacat---aaacatatggtatttacagacttctctcatgttcatgtgtattaatgtgaatttggtcacacacattttag
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv13s0047g00160.t01 (Vitis vinifera), 5'ss of exon 1
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaac-tggtttttgtag------------
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TCTGGATCTTAGCTTATCCTGGTAGGGAGCTCCCCTCTCTTAAGTCAGAGCTCTGGAAGGAGATGGGTTGGCAAGGTACTGATCCTTCAATAGATTTTAGgtgggtag----aggactatatataaacatctggtattttacag--acttctctcatgttcatgtgtattaatgtgaatttggtcaaacacattttag
upper sequence: AT3G03610.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv09s0096g00560.t01 (Vitis vinifera), 5'ss of exon 1
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaac-tggtttttgtag------------
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TTTGGAGCTTAGCTTATCCTGGCAGGGAGCTCCCCTCTCTTAAGTCAGAGCTCTGGAAGGAGATGGGTTGGCAAGGTATTGATCCTTCAACAGATTTTAAgtgggtag----aggacta--tatataaa-catctggtatttacatacttctctcatgttcatgtgtattaatgtgaatttggtcaaacacattttagMapped 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|124951500|gb|EL026862.1|EL026862EST: CTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCG AGGTGGAGGGTATATATCACT
genomic: CTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaatt ... gtttttgtagAGGTGGAGGGTATATATCACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGGAGGCTAGCTTATCCACAGAGAGAACTACCACCTCTTAAATCTGAACTCTGGAAGGAAATGGGTTGGCAAGGAACAGACCCTTCAACAGATTTTCGgtacacaattttagctctggtcatgcaaatcttcttatatctagtcattttactgatgtttggtttcattaactggtttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA