Sequence
atgc intronic sequence ATGC exonic sequenceGTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44270.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g52470.2 (Oryza sativa), 5'ss of exon 8
GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggt-tttatctgttcctaagttatagttt-cagccaatc-tctagttatttttatggcttattttttttttttgagtttgcag
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GTATGCATATTTCAAAAAGCTGGACTACTTCTCCACAGAATgtaatttcttactccttc-ctatgtatagatgttcagcagtcactgactagcattctgtaaccaatcatgcttttatacacactagcaataattctgctaa----------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G402242_T02 (Zea mays), 5'ss of exon 7
GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcag
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GTATGCATACTTCAAAAAGCTGGATTACTTTTCCACAGAATgtaa-tgtctggatcttttttctgttcagttcttttcattttttcccgcattgaaggagaccactttattccaatatcagaaaatgctaggatgtcacttg-------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G00350.3 (Glycine max), 5'ss of exon 1
----------------------------------------------------------------------------------------------------GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcag
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TTGCCAGATTGAGTAGATGCACCTCTATAACCACCGGTGAGGATGGCCCCATTCCCCGATGCAAACCTTTCAAGTATACTTACGAGAAGGAGATTGTCATgtatgcttatttcaagaagctcgattacttttccaccgaatgtaaccttcctttctttt-cctcttattttcccctctaactgccaaacaaacatttcactctctctacaattccag--------------------------------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G00350.1 (Glycine max), 5'ss of exon 1
-----------------------------------------------------------GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcag
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GATGGCCCCATTCCCCGATGCAAACCTTTCAAGTATACTTACGAGAAGGAGATTGTCATGTATGCTTATTTCAAGAAGCTCGATTACTTTTCCACCGAATgtaaccttcctttctttt-cctcttattttcccctctaactgccaaacaaacatttcactctctctacaattccag--------------------------------
upper sequence: AT2G44270.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S54_267V6.1 (Physcomitrella patens), 5'ss of exon 6
-----------------------------------------------------------GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttt-tatggcttattttttttttttgagtttgcag
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GAAGGTGCTTTGCCACGTTGCAAGCCCTTTAAATATACGTACGAGAAGGAGATTGTAATGTACGCATATTTCAAGAAGCTGGATTATTTTTCTACTGAATgtaagtccttttctatagttatttc------tgtttcaaaacttaggttcttgtttcccttgagaccttgcagttttgtgaagatagtatgagctgttctaatgcc---Mapped 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|124951429|gb|EL026798.1|EL026798EST: CTTATTTCAAGAAGCTGGATTACTTCTCCACTGAAT GCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAG
genomic: CTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtac ... gagtttgcagGCATTTACTCTCCTAATGCATATCGTGGGTTTGCCCGTGAGTTCATCAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGCTTATTTCAAGAAGCTGGATTACTTCTCCACTGAATgtaagtgtacaatcatcgattttttgtaggttttatctgttcctaagttatagtttcagccaatctctagttatttttatggcttattttttttttttgagtttgcag
- - - - - - AAGAAG
- - - - - - - AGAAGC
- - - - - - - - AAGCTG
- - - - - - - - - GCTGGA