Sequence
atgc intronic sequence ATGC exonic sequencegtaaaataaaaacaagaaacataagaaacctaaaatgaccaaaatttctcagttgtttgaatatataactgaatatgtttgttttgttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAACTGAAAGTGGAGACAATAATAATAATAATAATAATA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25690.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25690.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G396927_T01 (Zea mays), 3'ss of exon 5
------------------------gtaaaataaaaacaagaaacataagaaacctaaaatgaccaaaatttctcagttg-tttgaatatat-aactgaatatgtttgt--tttgttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAAC-TGAAAGTGGAGACAATAATAATAATAATAATAATA
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gtgtgaggttctctttccgtgttcatcaggtaaaatcctca--cgccaatattttcagaacccaggtacttcacaggtgatatgaatatttcgaatcagtaacttattcatctaccttctgcagTTTGCTGGGGGATTTGATGCAGAAAGCATGAAAGCTTTTGAAGAGCTAAGAAGCAAGATGAGTACACATAAATCTGCTCCACAGATATCTGAAGGCTGA--
upper sequence: AT3G25690.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G22620.1 (Glycine max), 3'ss of exon 8
gtaaaataaaaacaag--aaacataagaaacctaaaatgaccaaaatttctcagttgtttgaatatataactgaata-tgtttgttttg--ttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAAC---TGAAAGTGGAGACAATAATAATAATAATAATAATA
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-taatgtgaaaatttgttgaacacccggaacaatacacactaatgatggtgaggaccattcaaaataaaaacaactaatgatggtgtggaactcttttcagTTTGCAGGAGGCTTTGATGCAGAGAGCATGAAGGCTTTTGAAGAACTAAGGAGCCGCATCCAAACCTCTCAAGCTGGTGAAGATAGCAA--ATCAGAAACTT-
upper sequence: AT3G25690.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G11260.1 (Glycine max), 3'ss of exon 8
------gtaaaataaaaacaagaaacataagaaacctaaaatgaccaaaatttctcagttgtttgaatatataactgaatatgtttgttttgttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAACTGAAAGTGGAGACAATAATAATAATAATAATAATA-
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gcatacttctaataaagctatttaatatg-gatgtttgtcaaaggcgtaatgtgaaaatttgtttaacacccggaataatatggt-gtggtactctcttcagTTTGCAGGAGGCTTTGATGCAGAGAGCATGAAGGCTTTTGAAGACCTAAGGAACCGCATCCAAGCCTCTCAGGCTGGTGAAGATAACAA-AACAGAAACATMapped 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|125029575|gb|EL101844.1|EL101844EST: CGTTTAGAGTCCATCAG TTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGA
genomic: CGTTTAGAGTCCATCAGgtaaaataaa ... ttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttctcagttgtttgaatatataactgaatatgtttgttttgttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAACTGAAAGTGGAGACAATAATAATAATAATAATAATA
atataac putative branch site (score: 3)
ttttgtt putative PPT
tttgaatatataactg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaataaaaacaagaaacataagaaacctaaaatgaccaaaatttctcagttgtttgaatatataactgaatatgtttgttttgttatgtatagTTTGCTGGAGGGTTTGATGCAGAGAGCATGAAAGCATTTGAGGAACTTAGAAGCAGAGCCAAAACTGAAAGTGGAGACAATAATAATAATAATAATAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA