Sequence
atgc intronic sequence ATGC exonic sequenceTCTTGTTAGGAATGTACCTCCGGACCCAGACGAAACTGTGAGTGAGCTTGTGGAGCATTTTTTCCTAGTTAATCACCCTGATAACTACCTCACACATCAGgtaaattttctcattaaacggcttgaacttttcatatgtatttctatggtgtttttacacttcttgaatcaatatttag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G04340.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G04340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g51630.2 (Oryza sativa), 5'ss of exon 4
TCTTGTTAGGAATGTACCTCCGGACCCAGACGAAACTGTGAGTGAGCTTGTGGAGCATTTTTTCCTAGTTAATCACCCTGATAACTACCTCACACATCAGgtaaattttctcattaaacggct--tgaacttttcatatgtatttctatggtgtttttacacttcttgaatcaatatttag-------------------
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TCTTGTGCGGAATATACCTCCAGATCCTGATGAATCAATTAGTGAGCTCGTGGAGCATTTCTTCCTTGTTAATCATCCTGATCATTATCTAAGACACCAGgtaatctttggtaaaaatttgtggataactaagtcagatgtagttctgttgcttttctcttctgggggtttcaacaggtcatcatctgcttaggtaggag
upper sequence: AT4G04340.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv10s0116g00940.t01 (Vitis vinifera), 5'ss of exon 4
TCTTGTTAGGAATGTACCTCCGGACCCAGACGAAACTGTGAGTGAGCTTGTGGAGCATTTTTTCCTAGTTAATCACCCTGATAACTACCTCACACATCAGgtaaattttctcattaaacggcttgaacttttcatatgtatttctatggtgtttttacacttcttgaatcaatatttag-----------------------
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CCTTGTTAGGAATGTGCCCCCAGACGCAGATGAATCTGTTAGTGAGCTTGTGGAGCATTTTTTCCTGGTCAATCATTCAGATAACTATCTTACTCATCAGgttggactgct--ttaaacttatgcatgattttagaagttctaataggaaaaattggagatgctaatgaaagtaagtagcaattgatgatctctagaacccaMapped 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|124972069|gb|EL045788.1|EL045788EST: TTAATCACCCTGATAACTACCTCACACATCAG GTTGTATGCAATGCAAACAAGCTCGCGGATTTGGTTAGTAAAAAGACGAAG
genomic: TTAATCACCCTGATAACTACCTCACACATCAGgtaaattttc ... caatatttagGTTGTATGCAATGCAAACAAGCTCGCGGATTTGGTTAGTAAAAAGACGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTTGTTAGGAATGTACCTCCGGACCCAGACGAAACTGTGAGTGAGCTTGTGGAGCATTTTTTCCTAGTTAATCACCCTGATAACTACCTCACACATCAGgtaaattttctcattaaacggcttgaacttttcatatgtatttctatggtgtttttacacttcttgaatcaatatttag
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA