Sequence
atgc intronic sequence ATGC exonic sequenceAAATAAGACAAATGTACTTATTGATGCCTTCCCCATACGGAATGATGGGGAATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttgctactttccttgtatgtttataatctcgttctgctcatatttttgtctaaacaacatgaaacatatttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G61710.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G61710.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G21490.1 (Glycine max), 5'ss of exon 6
AAATAAGACAAATGTACTTATTGATGCCTTCCCCATACGGAATGATGGGGAATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttgctactttccttgtatgtttataatctcgttctgctcatatttttgtctaaacaacatgaaacatatttag--------------------
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GAAGCGTACAAATGTGCTCAATGATGCCTTCCCCATTTCTCATGATGGAGAGTTTGGAACAATTAACAATTTTCGACTTGGAAGACTTCCTAAAATTCCTgtaagatgcctaaggtgttgtatttctggattttaatgttgtgtcaatgtgttgttgagtttaatatgcatggttgtcttccttctattgtatgctttta
upper sequence: AT3G61710.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA04G26840.1 (Glycine max), 5'ss of exon 6
AAATAAGACAAATGTACTTATTGATGCCTTCCCCATACGGAATGATGGGGAATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttgctactttccttgtatgtttataatctcgt-tctgctcatatttttgtctaaacaacatgaaacatatttag-------------------
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GAAGCGTACAAATGTGCTCAATGACGCCTTCCCCATTTCTCATGATGGAGAGTTTGGAACAATTAACAATTTTCGACTTGGAAGACTTCCTAAAATTCCTgtaagatgcctaacatgtatttctggcttttaattttgtgtcaatgtgttgttgagtttaatatgcatggttgggttccttctattgtatgcttttaaag
upper sequence: AT3G61710.3 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv15s0046g00950.t01 (Vitis vinifera), 5'ss of exon 6
AAATAAGACAAATGTACTTATTGATGCCTTCCCCATACGGAATGATGGGGAATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttgctactttcc---ttgtatgtttataatct------cgttc--tgctcatatttt-tgtctaaa----caacatgaaacatatttag----
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GAAGAGAACTAATGTACTGAATGATGCCTTCCCCATTTGGCATGATGGAGAATTTGGAACAATTAACAATTTTCGGCTTGGACGACTTCCTAAAATTCCAgtaagaaatcttagcctccagtctgtttacttttgagtgagaggatgttgaatgaacatatcttgtgcccccatcccctccatgaacagcattgtgagccMapped 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|116473301|gb|EG515893.1|EG515893EST: AATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAA GTTGAGTGGGATGAGATCAATGCTGCTTGGGGCCAAGCCTGTCTTCTCCTC
genomic: AATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttg ... acatatttagGTTGAGTGGGATGAGATCAATGCTGCTTGGGGCCAAGCCTGTCTTCTCCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATAAGACAAATGTACTTATTGATGCCTTCCCCATACGGAATGATGGGGAATTTGGTACAATTAACAATTTTCGACTTGGAAGACTCCCTGCCATAAAAgtaagttttgctactttccttgtatgtttataatctcgttctgctcatatttttgtctaaacaacatgaaacatatttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA