Sequence
atgc intronic sequence ATGC exonic sequenceAAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G47510.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGCTATGACAATGCTGCAGCTGTTGCTAAGAAAGCACACAAAGAAGGAAGCACATTGAAGgtgattatt-----ccatttattttag----------ttgttttgattcgaaactgatgtgcaatggtctgcgttagccttaaggtg------atatgtgcaaacataatttcatattttg------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GRMZM2G010823_T01 (Zea mays), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGCTATGACAATGCTGCAGCTGTTGCTAAGAAAGCCCACAAAGAAGGAACCACGTTGAAGgtgatctttcgttacttatt-tcactttgccttggccttgctctgtggt--gtattacgtgctatc-ttagcttaggtgacttgcgcatgttgatatcttggcc-----------------------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GLYMA02G01930.1 (Glycine max), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATCGGTTATGACAAGGCAGCAACAGTTGCCAAGACAGCTCACAAAGAGGGGACTACTCTTAAGgtgatgatgccattgttattcttgttt----tcctgtttgtcttgc---------------ttatt--ctgacctctcgttttgaatattaacaaaaaaattatgctgc---catatattaatt---------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaat-atatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGTTATGACAAGGCAGCAGCAGTTGCCAAGACAGCCCACAAAGAGGGGTGTACTCTTAAGgtgatga------------tgtcatg-----ttatacttgtttttctgtttgtcttgcttattttgacctctttttgaatattaaaaaaaaatcatgtttgacatattaatt-cttaa----------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GLYMA10G02040.1 (Glycine max), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGTTATGACAAGGCAGCAGCAGTTGCCAAGACAGCCCACAAAGAGGGGTGTACTCTTAAGgtgat-----gatgccatgttatacttgtttttccgtttgtcttgct------------tattttgacctctttctgaatattaaataaaaaatcatgtttgacatgcattaattct----------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 5'ss of exon 14
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcat---cagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATCGGCTATGATAATGCTGCAGCGGTTGCCAAGAAAGCTCACAAGGAGGGAACCACTCTTAAGgtggtctta---ttttccttcctatgcaataactgaaccctcgtgcattgtgttaggaaaattattaactcatttcacaatagtttgatgcattgcagatttg---------------------------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: PP1S49_154V6.1 (Physcomitrella patens), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGTTATGACAAAGCTGCAGCATGTGCGAAGAAAGCTCACAAAGAAGGGACTACATTGAAGg------caagacctcagtttttgtgttgtgctgg----gttctgcagttaacaaaagtcatttatgcacgcttctgtttcttggatatggatgttaatgtcgcaccgcc-----------------------------------------------------------------
upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: PP1S9_243V6.1 (Physcomitrella patens), 5'ss of exon 16
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
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AAAATTGGTTATGACAAGGCCGCAGCGTGCGCCAAGAAAGCTCACAAAGAAGGAACTACACTGAAGgcaagatctcgc----gtttcgtattgtgctctgcaatcaac-aaaatttatatatgcatgctgttgtttccgtaa------tattggtgtttat-tttgaaaagcctgggg---------------------------------------------------------------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|125125681|gb|EL171116.1|EL171116EST: AGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAG GAAGCGGCTCTGAATTTAGGCGTGCTTACTGCGGAAGAGTTTGATACACTT
genomic: AGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaa ... tatcctacagGAAGCGGCTCTGAATTTAGGCGTGCTTACTGCGGAAGAGTTTGATACACTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAATCGGGTATGACAATGCTGCAGCAGTTGCCAAGAAAGCTCACAAAGAAGGATGTACATTGAAGgtaaacacaagaaacaatttattatagagaattgaaattgattggcaacaagagaaagacgttattgcctgcatcagcagtttgatagcaaatatatctgcaatgcagattacataaatttattgtaaacaggttctatagtatgttaaaccttgagttttaatttatcctacag
- - - - - - - - ATGCTG
- - - - - - - - TGCTGC
- - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG