Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatgctttgagatcttgttatgcattagaatctgtttgtttggtatttatttataatgattttgaggtttctgtgttccatggatattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAAGGACTACAAGCACCTCGTGTGATAAATGCTTATGCGAAGTTCCTTGATGAAGCACC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02300.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G074024_T02 (Zea mays), 3'ss of exon 5
--------gtaagaatgctttgagatcttgttatgcattagaatctgtttgtttggtatttatttataatgattttgaggtttctgtgttccatggatattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAAGGACTACAAGCACCTCGTGTGATAAATGCTTATGCGAAGTTCCTTGATGAAGCACC
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cttcttttttaaaaaaacc----aacaacaggatgcacggccacttgatttcaaaatttatatttctgactattgatgggacgtgctattttcttacta--accagGCTACAATGAGTATGGTCAGCTTGGCAGAGGTCGCACTTCTCAAGGACTTCAGGGAGCTCGTGTGTTAAATGCTTATGCAAGGTTCCTTGATGACGCCCC
upper sequence: AT3G02300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0083g01020.t01 (Vitis vinifera), 3'ss of exon 4
gtaagaatgctttgagatcttgttatgca--ttagaatctgtttgtttggtatttatttataatgattttgaggtttctg-tgttccatggatattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAAGGACTACAAGCACCTCGTGTGATAAATGCTTATGCGAAGTTCCTTGATGAAGCACC
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ttacatagatcatgtaatttggacaaggaaacctaagcatttataccttgcttcctgtcatcctattaatcagaattttaataatgttctgataa-atcagGTTACAATGAGTATGGTCAGCTTGGTAGGGGTATTACTTGTGAAGGACTACAGGGGGCTCGTGTTATAAATGCTTATTCAAAGTTCTTTAATGAAGCCCCMapped 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|164038161|gb|ES075601.1|ES075601EST: GACAGCTCATGTTGTGGCCTTATCAGAGGAAGGCCTTCTTCAAGCTTGGG GCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAA
genomic: GACAGCTCATGTTGTGGCCTTATCAGAGGAAGGCCTTCTTCAAGCTTGGGgtaagaatgc ... atattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggtatttatttataatgattttgaggtttctgtgttccatggatattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAAGGACTACAAGCACCTCGTGTGATAAATGCTTATGCGAAGTTCCTTGATGAAGCACC
tatttatttataatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatgctttgagatcttgttatgcattagaatctgtttgtttggtatttatttataatgattttgaggtttctgtgttccatggatattataagGCTATAATGAACAAGGCCAACTTGGTAGAGGAGTCACTTGTGAAGGACTACAAGCACCTCGTGTGATAAATGCTTATGCGAAGTTCCTTGATGAAGCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC