Sequence
atgc intronic sequence ATGC exonic sequenceAAGAACAATTCTCAGTGACCATATAGAGCAGCGGTTGTTTAAAAGGCTGAAGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgtaatctggcggtggaatacagggttttaaagtctcatgtgattttgcattgagtcctatcttctattgtttgttgaagtgctacttcactggaaacaatagattgaagcttactggttggtcactgattgtttaatttttcttttactggcactaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16710.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G00230.1 (Glycine max), 5'ss of exon 8
AAGAACAATTCTCAGTGACCATATAGAGCAGCGGTTGTTTAAAAGGCTGAAGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgtaat-ctggcggtggaatacagggttttaaagtctcatgtgattttgcattgagtc--ctatcttctattgtttgttgaagtgctacttcactggaaacaatagattgaagcttactggttggtcactgattgtttaatttttcttttactggcactaacag
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GAGAACTATTCTCAGTGATCACATAGAACAGCGATTATTTAAACGGCTAAAGCAAGAAAGACAAGAAAGGGCAAGGCTTCAAGGAAAAAGTTATGATGAGgtgattcttgtattggttggcagaaat---aagtttggttcactttattatttcattgtttattttctttagtatatttaa----taaatgggggaaaggtgtatat--------------------------------------------------------
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G24290.1 (Glycine max), 5'ss of exon 10
AAGAACAATTCTCAGTGACCATATAGAGCAGCGGTTGTTTAAAAGGCTGAAGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgtaat-ctggcggtggaatacagggttttaaagtctcatgtgattttgcattgagtcctatcttctattgtttgttgaagtgctacttcactggaaacaatagattgaagcttactggttggtcactgattgtttaatttttcttttactggcactaacag
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GAGAACTATTCTTAGTGATCACATAGAACAGCGATTATTTAAACGGCTAAAGCAAGAAAGACTAGAAAGGGCAAGGCTTCAAGGAAAAAGTTATGATGAGgtgattcttgtattggttt-----ggttcactttttcatttcatcatttatt---ttctttagtatatt-ttagttctttcatcattattttaggatatgtacgtggag----------------------------------------------------
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 5'ss of exon 7
AAGAACAATTCTCAGTGACCATATAGAGCAGCGGTTGTTTAAAAGGCTGAAGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgta---atctggcggtggaatacagggttttaaagtctcatgtgatt-ttgcattg-agtcctatcttctattgtttgttgaagtgctacttcactggaaacaatagattgaagcttactggttggtcactgattgtttaatttttcttttactggcactaacag
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AAGGACAATTCTTAGTGACCACATAGAACAGCGGTTATTTAAAAGACTCAAGCAGGAAAGGCAAGAGAGGGCAAGGCTTCAAGGGAAAGGTTTTGATGAGgtacttattaaaaaaaaaagaaaaaggttttgatgaggtattttattgctgttttgtaggatgatggcttaatatttgctgtga----atcttgatagcagtaa-------------------------------------------------------------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|116434362|gb|EG476954.1|EG476954EST: AGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAG ATTCCAACTGTTGAATCCCTTGTGGTTAGAGTTGTTTCATCTGTTGACAAG
genomic: AGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgtaatctggc ... gcactaacagATTCCAACTGTTGAATCCCTTGTGGTTAGAGTTGTTTCATCTGTTGACAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAACAATTCTCAGTGACCATATAGAGCAGCGGTTGTTTAAAAGGCTGAAGCAGGAAAGGACTGAGAGAGCCAGGGTTCAAGGAACAAGTTATGATGAGgtaatctggcggtggaatacagggttttaaagtctcatgtgattttgcattgagtcctatcttctattgtttgttgaagtgctacttcactggaaacaatagattgaagcttactggttggtcactgattgtttaatttttcttttactggcactaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA