Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatttttttccaagattgtgtatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G35190.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os06g50120.2 (Oryza sativa), 3'ss of exon 7
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatt-tttttccaagattgtgtatttgtg-tgtgaattctgagaattattaagatagtttacatt-ttccttgtt---cagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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------------------------------------------------gcaggatttctttgttcttctcaaaccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTG--------
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os06g50120.1 (Oryza sativa), 3'ss of exon 7
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatt-tttttccaagattgtgtatttgtg-tgtgaattctgagaattattaagatagtttacatt-ttccttgtt---cagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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------------------------------------------------gcaggatttctttgttcttctcaaaccagccaatcatgctgtgtaacctggatataccagagctaacttcggttatttcttattgaccagACAGAGCAAATGAGCAGAATTGTTAATGAGCTGGATTCCATTCATTTCTCCATTAAAAAGGCATCACAAATGGTGAAAGAAATTGGTAGGCAG
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G05720.1 (Glycine max), 3'ss of exon 4
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatttttttccaagattgtgtatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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---------------------------gtatgaatc-ttatgcctagtcccacacctcagaatcaactgagaaaaaaagcttgaatttg--ccatgtgaacta-----agggtacac-tcttctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTGGTAGGCAG
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G05720.2 (Glycine max), 3'ss of exon 4
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatttttttccaagattgtgtatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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---------------------------gtatgaatc-ttatgcctagtcccacacctcagaatcaactgagaaaaaaagcttgaatttgccatgtga-----actaagg--gtacac-tcttctatgtctagACAGAACAAATGAGTAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATGAAGAAAGCCTCTAAATTGGTCAAGGAAATTG--------
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G15990.1 (Glycine max), 3'ss of exon 7
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttcta--cctgaatctcatttttttccaagattgtgtatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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------------------------------gtatgaatcttaagcctagtcccacaccccagaattaattgagaaaaaaagcttgagtttg--ccatgggaacta-----agggttcac-tcttctatgtctagACGGAACAAATGAGCAGAGTTGTCAATGAGCTGGATTCAATCCATTTCTCTATAAAGAAAGCCTCTAAATTGGTCAAGGAAATCGGTAGGCAG
upper sequence: AT2G35190.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv02s0012g00140.t01 (Vitis vinifera), 3'ss of exon 7
gtgtgtagttagcccacacttgtttctttccaaacagtc-----ctgcttctacctgaatctcattttt--ttccaagattgtgtatttgtgtgtgaa-----ttctgagaattattaagata---gtttacattttcctt--------gttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
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gtctgtacctcatcaatattaaatttttttctgattctgacacattgctacaatttagattcaatttacagcacttgtattttacctttctttttgaaggttttcctaagacatggtagcttaagtgtttcaatttactttacgtttatgttcagACTGAACAAATGAGCAGGATTGTTAACGAGCTAGATTCTATCCATTTCTCAATCAAGAAAGCTTCACAGCTGGTCAAGGAAATTGGTAGGCAGMapped 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|125275576|gb|EL289661.1|EL289661EST: AAGAAACTATAAATGTGGGAACAGATACTTCAGCAGCTCTCAAGGCTCAG ACCGGGCAAATGAGTAGAGTTGTCAATGAG
genomic: AAGAAACTATAAATGTGGGAACAGATACTTCAGCAGCTCTCAAGGCTCAGgtgtgtagtt ... ccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
tttacattttcctt CT-rich tract
aattattaagatagtt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtagttagcccacacttgtttctttccaaacagtcctgcttctacctgaatctcatttttttccaagattgtgtatttgtgtgtgaattctgagaattattaagatagtttacattttccttgttcagACCGAGCAAATGAGTAGAGTTGTCAATGAGCTCGATTCTATTCATTTCTCACTCAAGAAAGCCTCCAAGCTGGTCAAGGAAATTGGTAGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA