Sequence
atgc intronic sequence ATGC exonic sequence...ttgttaccactccttcatggaagaattgaaacttgtgtactgtttcctcgaccctgttattacgagtgtgatcccaaggaccggttctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G24620.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G24620.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os09g29070.1 (Oryza sativa), 3'ss of exon 8
----ttgttaccactccttcatggaagaattgaaacttgtgtactgtttcctcgaccctgttattacgagtgtgatcccaaggaccggttctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
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aatcttaagctgaaacaaacagagcctaaacttaactagt-taccaataattaaattatgtctccaatagtttgctgacaaacagaaattttt---aatggcagGTTAATCAAGGTCTAACTGTGTATGGCAACAAAGGAAGCACCGATCAGCATGC
upper sequence: AT4G24620.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G076075_T01 (Zea mays), 3'ss of exon 7
ttgttaccactccttcatggaagaattga---aacttgtgtactgtttcc------tcgaccctgttattacgagtgtgatc--ccaaggaccggttctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
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--gtaaaaagccttccatattctagtcaatttactttacctgatgtttttgaactactaggtttattttcatcaatgttctttgtttaacatagaaatttccaatgt-cagGTTAATCAAGGGCTAACTGTATATGGTAACAAAGGAAGCACTGACCAGCATGC
upper sequence: AT4G24620.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G37590.1 (Glycine max), 3'ss of exon 8
ttgttaccactccttcatggaagaattgaaacttgtgtactgttt--cctcgaccctgttattacgagtgtgatcccaaggaccggtt-ctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
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ggatctttcatactacatgttatg-tcacaatttgtg-actgtttaatcttaaacatgtcaa-atcttcatgaattaaatgtctttcgattttgattccacagGTTAATCAAGGAATTAGTGTCTATGGAAATAAAGGAAGCACAGATCAGCATGCMapped 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|124958429|gb|EL033174.1|EL033174EST: GAGTTTGATCTTGACGGTAACACT GTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCAC
genomic: GAGTTTGATCTTGACGGTAACACTgtaagcatac ... gaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCAC
EST:
gi|86063838|gb|DR359595.1|DR359595EST: ATCTGGTCATGGAATCACTAGGAAAGGAGTTTGATCTTGACGGTAACACT GTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGNTCAGCAC
genomic: AGCTGGTCATGGAATCACTAGGAAAGGAGTTTGATCTTGACGGTAACACTgtaagcatac ... gaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcgaccctgttattacgagtgtgatcccaaggaccggttctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
ttctttg CT-rich tract
tttgaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttaccactccttcatggaagaattgaaacttgtgtactgtttcctcgaccctgttattacgagtgtgatcccaaggaccggttctttgaatttgcagGTTAATCAAGGGTTAACTGTGTATGGAAATAAGGGAAGCACAGATCAGCACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - ccactcc
- - - - - - - - - ggaagaa
- - - - - - - - - - - - -ttgaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcccaa