Sequence
atgc intronic sequence ATGC exonic sequenceCTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctctcattcctatcttaatctctgcccaaagatgaaggagtttttctttttaattcttgtgatctcttaataacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G16143.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G16143.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 5
CTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctctcattcctat---cttaatctctgcccaaagatgaagg-agtttttctttttaattcttgtgatctcttaataacag
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AGCACAGTTGAATGAGCACACTAAACTCTCTATGCTAAGGAATGCAACTTGGACTTTATCGAACTTCTGCAGAGGAAAACCACAGCCATCATTTGAACAGgtttggacaaagtttctttgtactctactgtagttagtagggaaagacagttccttaacatgatgtttattgggtgtcaatag---
upper sequence: AT4G16143.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G088231_T01 (Zea mays), 5'ss of exon 5
CTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctctcattcctatcttaatctctgcccaaagatgaaggagtttttctttttaattcttgtgatctcttaataacag--
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AGCCCAGTTGAATGAGCATGTTAAGCTCTCCATGCTGCGGAATGCCACCTGGACTTTGTCTAACTTCTGCAGGGGAAAACCACAGCCATCATTTGATCAGgttt-taaacaagacttcttttaactgcttttctgtaactgtgg----taactaactaaacatgtttatctttggctgttatag
upper sequence: AT4G16143.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 5
CTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctctcattcctatcttaatctctgcccaaagatgaaggagtttttctttttaattcttgtgatctcttaataacag
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AGCCCAGTTGAATGAGCATGCGAAGCTCTCCATGTTGAGGAATGCCACCTGGACTCTGTCCAACTTTTGCAGGGGAAAGCCACAGCCATCATTTGATCAGgtcg--tagacaagacttctttaattgcttttctgtaac--agtggttactaaataaacatgttattctttgactgttacag
upper sequence: AT4G16143.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S43_141V6.1 (Physcomitrella patens), 5'ss of exon 6
CTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgt--ctctcattcctatcttaatctctgcccaaagatgaaggagtttttctttttaattcttgtgatctcttaataacag-----------------
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TGCCCAGCTCACCGACAATACGAAACTCTCTATGCTCAGAAACGCCACGTGGACGCTCTCTAATTTTTGCCGGGGCAAGCCGCAGCCACCATTTGAGCAGgtgtgtattttttgtttttgttttttgttctatctaca-atcactcattgcaattaccgaaggatgaatgactatcattttctggagaattcctgtagagaMapped 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|124996443|gb|EL068712.1|EL068712EST: GGA-CCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAG GTCCGTCCAGCACTCCCAGCCCTTGAACGCCTGATTCATTCGACTGATG
genomic: GGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctct ... ttaataacagGTCCGTCCAGCACTCCCAGCCCTTGAACGCCTGATTCATTCGACTGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCTCAGTTGAATGAGCATGCTAAACTCTCGATGCTGAGAAATGCTACTTGGACCCTCTCTAATTTCTGCAGGGGCAAGCCACAGCCTCCCTTTGACCAGgtttgtctctcattcctatcttaatctctgcccaaagatgaaggagtttttctttttaattcttgtgatctcttaataacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG