Sequence
atgc intronic sequence ATGC exonic sequence...gatcgtttgacttacagaaatcatctatactatacttttattttctcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G50150.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA06G19020.1 (Glycine max), 3'ss of exon 7
-------gatcgtttgacttacaga-aatcatctatactatacttttattttctcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
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acaactcattcatgaaaattagacacaattatattatctgta-tcccatttcctttcaaagatccccata-tactaaatatgttgaaattctttgtg------tatagGATCCAAAGCATGGGCACTGGTGGCTGGAATTCGGGTCAGGACTACTAGTAGGGTATTGGCCAGCAAACATGTTCAGTCACTTGAGGAACCATGCAAGCA
upper sequence: AT5G50150.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv17s0000g08870.t01 (Vitis vinifera), 3'ss of exon 6
--gatcgtttgacttacagaaatcatctatactatacttttattttctcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
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aatgcagtaaagcacaataaaatctccaagacctaagtgttgtacaatat-gttgctatgctagaaactaa-tggagaaacatctttttattgtgcgtgtagGATCCAAAGCATGGACACTGGTGGCTTGAGTACGGGTCTGGACTATTGGTTGGGTACTGGCCATCGTTCTTGTTTAGCCACTTGGGGAATCATGCAAACAMapped 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|164064393|gb|ES169976.1|ES169976EST: GGTCCTCTTATAATGGAAGACAGTTTGATATCGGTTTAATGATTTGGAAG GATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTG
genomic: GGTCCTCTTATAATGGAAGACAGTTTGATATCGGTTTAATGATTTGGAAGgtcagtcttc ... cttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
attttaaacttaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcgtttgacttacagaaatcatctatactatacttttattttctcttgaagctaaatgtgctattgcctatattgtggtcattttaaacttaatgtagGATCCAAAACATGGGCACTGGTGGCTTGAACTAGGGAATGGACTTCTTGTGGGATACTGGCCAGCTTTCTTGTTCAGTCACTTGAGGAGTCATGCAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - -acagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - aagctaa