Sequence
atgc intronic sequence ATGC exonic sequencegtttgtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G01450.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G01450.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os06g49430.1 (Oryza sativa), 3'ss of exon 1
gtttgtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCA-ATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG------------
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--------tttgtttatagggct--attctactactgaagaagtttta--taaccagccac----tctgtatttttagttagcttaatattttcttgcaaa-attgtgatcttgtagAACACAGTGGAAATGGAGTTCTTCACTGAGTATGGAGAAGCAAGCCAGTACCAGATCCAGGAAGTCATTGGCAAAGGAAGTTATGGAGTAGTTGCTGCTG
upper sequence: AT2G01450.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g04230.2 (Oryza sativa), 3'ss of exon 1
gtttgtcttttggatc-tagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaa-cagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG------------
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-----------ggattgttgaggactcctaaaatgttccc---tcacatgct--ctatacacattttttctattc-tgtgatggtctatatgattttgggaaattgtgatgttttag-
upper sequence: AT2G01450.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 1
gtttgtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG----------------------------------------
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---------------------------------attccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggt---cttacagaactcagta--------gaaatggagttcttcacagAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGCTGTGGACACCCGCACCGGTGAGCGGGT
upper sequence: AT2G01450.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G135904_T02 (Zea mays), 3'ss of exon 1
gtttgtcttttggatctagggttttattatag--catttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG------------
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-------tttcactacaggtattttgtaacaagtcattccttggatactcatcattctgtatatctctggttaacttcaatatgtacttgaaattgcggt---cttacagAACTCAGTA--------GAAATGGAGTTCTTCACAGAGTACGGAGAGGCAAGCCAGTACCAGATCCAAGAAGTCATTGGTAAAGGGAGCTACGGAGTAGTTGCTGCAGMapped 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|86072724|gb|DR368481.1|DR368481EST: GGTTCTTCCTTGTGAATATTGCTTGATCTAGGAAACTAATCAGGATCTGG TGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAA
genomic: GGTTCTTCCTTGTGAATATTGCTTGATCTAGGAAACTAATCAGGATCTGGgtttgtcttt ... ttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG
atttgtatt 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
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gtttgtcttttggatctagggttttattatagcatttctgggttctttgttgaccaagaagaagatttgtattgatggaatgttgttgatgttgttgtgaacagTGAGAAATCAATAAGATGTTGGAGAAAGAGTTTTTCACGGAGTATGGTGAAGCAAGTCAATATCAGATCCAAGAAGTTGTTGGCAAAGGAAGCTACGGAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA