Sequence
atgc intronic sequence ATGC exonic sequencegttagctctctagtgtaatcttgagtcttgacatgtgtttgtttcctcaacgttgttataatatggaatcttgaaaatgcagGTTCGAGTAGCTGATCCTACTTTTCTTGGATACTTCATCGATAAAGGGGCTGCTTCGGCTGCAAAAGTTGTGCGGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31070.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31070.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G09170.1 (Glycine max), 3'ss of exon 9
-------------------gttagctctctagtgt-aatcttgagtcttgacatgtgtttgtttcct---caacgttgttataatatggaatcttgaaaatgcagGTTCGAGTAGCTGATCCTACTTTTCTTGGATACTTCATCGATAAAGGGGCTGCTTCGGCTGCAAAAGTTGTGCGGAAG
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gtaatttattttcttgcttcctatttttctctcattaatcaattttcctggtcagttatcacttcttatttaaagaaatattgattaggatttgtgaaa---cagGTTCGAGTTGCTGATCCAACTTTTTTAGGTTACTTCATTGATAAAGGTGTTGCTGCTGCTGCAAAAGTTGTCCGTAAG
upper sequence: AT1G31070.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA05G26240.1 (Glycine max), 3'ss of exon 9
---gttagctctctagtgtaat-cttgagtcttgacatgtgtttgtttcc--tcaacg-ttgttataatatggaatcttgaaaatg----------cagGTTCGAGTAGCTGATCCTACTTTTCTTGGATACTTCATCGATAAAGGGGCTGCTTCGGCTGCAAAAGTTGTGCGGAAG
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gtaatttattttcttgcttcctatttatctctcaatcagttttccttgtcagttatcacttcttatttaaagaaatattgattaggatttgtgaaacagGTTCGAGTTGCCGATCCAACTTTTTTAGGTTACTTCATTGATAAAGGTGTTGCTGCTGCTGCAAAAGTTGTCCGCAAGMapped 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|125295229|gb|EL309314.1|EL309314EST: GGGGGAGTTAAATACGTCGATTGCTATGGCGTTGACAATGTCCTG GTTCGAGTAGCTGATCCTACTTTTCTTGGATA
genomic: GGGGGA-TTAAATACGTCGATTGCTATGGCGTTGACAATGTCCTGgttagctctc ... gaaaatgcagGTTCGAGTAGCTGATCCTACTTTTCTTGGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacatgtgtttgtttcctcaacgttgttataatatggaatcttgaaaatgcagGTTCGAGTAGCTGATCCTACTTTTCTTGGATACTTCATCGATAAAGGGGCTGCTTCGGCTGCAAAAGTTGTGCGGAAG
tcttgac putative branch site (score: 3)
ttataatatggaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagctctctagtgtaatcttgagtcttgacatgtgtttgtttcctcaacgttgttataatatggaatcttgaaaatgcagGTTCGAGTAGCTGATCCTACTTTTCTTGGATACTTCATCGATAAAGGGGCTGCTTCGGCTGCAAAAGTTGTGCGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT