Sequence
atgc intronic sequence ATGC exonic sequence...gtttattaaaagtctagaaggaacaaatgattttctcacacttagccatcctcttaagctctctagtaccgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G50710.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA18G11000.1 (Glycine max), 3'ss of exon 6
--------gtttattaaaagtctagaaggaacaaatgattttctcacacttagccatcctcttaagctctctagt-accgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
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atattttgcattgcttttatcctatgataaaaaaaaaatt-----gcacttggaaatatatctgtagactaaagttacttacttttcatactgttactttac----cagGGTGAAATTGCTGATTGAGGAGATTGAAAGGGAAGAAACAGCACTGCGGGATGACCTTTATTCTGCAGATAGAAAGTTTGCTGAATATTACAAT
upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G42870.1 (Glycine max), 3'ss of exon 6
----gtttattaaaagtctagaaggaacaaatgattttctcacacttagccatcctcttaagctctctagtaccgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
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tattttgcattgcctgtatcctatgataacaaaaaatatttgcacttgaaatatatctgtagactaaagttacttgcttttcatactgttactttac----cagGGTGAAACTGTTGATTGAGGAGATTGAAAGAGAAGAAACAGCGCTGCGGGATGACCTTTATTCTGCAGATAGAAAGTTTGCTGAATATTATAAT
upper sequence: AT1G50710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv19s0090g00440.t01 (Vitis vinifera), 3'ss of exon 6
-----gtttattaaaagtctagaagga---acaaatgattttctca-cacttagccatcctcttaagctctctagtaccgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
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aagggatttctcagataacgaaagacatgcacagagggttccgttaacggatcatttcccttttaagcctgttaactcctctcat--------ttttcattcaat-cagGGTGAAGTTAATCATTGAGGAGATTGAAAGGGAAGAAGCTGCTTTGCGGGAGGACCTCTATTCTGCTGATAGAAAGTTTGCAGAATACTACAATMapped 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|163990752|gb|ES031964.1|ES031964EST: TCAAGTGCTAGGCTCCCAGAAAG GGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGA
genomic: TCAAGTGCTAGGCTCCCAGAAAGgttagcttta ... tgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatcctcttaagctctctagtaccgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
ttttcttgcatttc CT-rich tract
ttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattaaaagtctagaaggaacaaatgattttctcacacttagccatcctcttaagctctctagtaccgatgagtgaccgtgttttcttgcatttcagGGTTAAGTTTATAATTGAGGAGATTGAAAGAGATGAAGCAGCTCTACGAGAGGACCTGTACTCGGCTGACAGGAAGTTTGCTGAATATTACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - attaaaa
- - - - - - - - - - gaacaaa
- - - - - - - - - - - - - - - - - ctcacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcta