Sequence
atgc intronic sequence ATGC exonic sequence...aatttcttagatgtcaccactggcttttatctggttggggatttaaggggagatcaatttaatcttatttgatgctaggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26510.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 3'ss of exon 5
---aatttcttagatg-tcaccactggcttttatctggttggggatttaaggggagatcaatttaatcttatttgatgc--taggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG
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gaaaattggatcactgattacagtttattcttctct--ttgtttatccatatctgttttactttatgtttcagagaaaccctaatattttga----cttctgtcagGTCAATCCTTCAGATGTAATTATTTTGGAAGGAATTCTGGTTTTCCATGATTCACGTGTCCGGGATTTGATGAACATGAAGATCTTTGTTGACACAG
upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 3'ss of exon 5
-----aatttcttagatg-tcaccactggcttttatctggttggggatttaaggggagatcaatttaatcttatttgatgctaggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG
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aagaaaattagatcactgcttatagtttgttcttcact--ttatttattcatatttgttttactttatgtttcagagaccctaatattttgactgctgt----cagGTCAATCCTTCAGATGTAATTATTTTGGAAGGTATTCTGGTTTTCCATGATTCACGTGTCCGGGACTTGATGAACATGAAGATATTTGTTGATACAG
upper sequence: AT4G26510.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G08180.1 (Glycine max), 3'ss of exon 5
aatttcttag--atgtcaccactggcttttatctggttggggatttaaggggagatcaatttaatcttatttgatgctaggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG-
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aagcatagaatcatgatattccaaatgcatattttagcttagttttatgaagttgctg--tcattctcatttcattttgtgttgctttatcatgtttt-caggTGAACCCTTCAGATGTTATAATTTTAGAAGGCATCCTTGTTTTCCATGATCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGGMapped 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|19876190|gb|AU237021.1|AU237021EST: ATATTCCAAAATATGATTTTAAAACTTACAGGAGCAGTGTTTTCAGAAGG GTAAATCCTACAGATGTAATANTTCTTGAAGGGATACNTTTTG
genomic: ATATTCCAAAATATGATTTTAAAACTTACAGGAGCAGTGTTTTCAGAAGGgtaccacctt ... cattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATAC-TTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggggagatcaatttaatcttatttgatgctaggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG
atcaatttaatcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttcttagatgtcaccactggcttttatctggttggggatttaaggggagatcaatttaatcttatttgatgctaggattttgaaaaacattctgcagGTAAATCCTACAGATGTAATAATTCTTGAAGGGATACTTTTGTTCCATGATCCACGCGTCCGAAAGTTGATGAACATGAAGATTTTTGTTTGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA