Sequence
atgc intronic sequence ATGC exonic sequencegtagagtaacttagaggagtgatgatatcatcgatggttaatcacgaaaaagatagcagtgacagagcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G17270.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G17270.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G01370.4 (Glycine max), 3'ss of exon 8
gtagagtaacttagaggagtgatgatatcatcgatggttaat-cacgaaaaagatagcagtgacaga-gcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
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--agagaaatttggatt--ttgcagtctgctgtttaattaatgttagtttcatgttgaattgatgcatatatgatggctgagttgatttctttctctttcacagTTGTTGGGAGATATGTTACTTGATCGTTCAAATTCAGCCGTAATGACAAGATATGTGAGCTCAAGAGACAACTTGAGGATTTTAATGAATCTTCTAAGA
upper sequence: AT4G17270.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G01370.2 (Glycine max), 3'ss of exon 7
gtagagtaacttagaggagtgatgatatcatcgatggttaatcacgaaaa-agatagcagtgacaga-gcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA-
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--agagaaatttggatt--ttgcagtctgctgtttaattaatgttagtttcatgttgaattgatgcatatatgatggctgagttgatttctttctctttcacagTTGTTGGGAGATATGTTACTTGATCGTTCAAATTCAGCCGTAATGACAAGATATGTGAGCTCAAGAGACAACTTGAGGATTTTAATGAATCTTCTAAGAG
upper sequence: AT4G17270.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G12220.1 (Glycine max), 3'ss of exon 7
--gtagagtaacttagaggagtg-atgatatcatcgatggttaatcacgaaaaagatagcagtgacagagcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
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ttggatttttggtttttgcagtctactgtttaattaatg-ttagtttcatgttgaatagatgc-atatatgatt--gcttagttg-atttctttctctttcacagTTGTTGGGAGATATGTTACTTGATCGTTCAAATTCAGCTGTAATGACACGATATGTGAGCTCAAGAGACAACTTGAGGATTTTAATGAATCTTCTTAGA
upper sequence: AT4G17270.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 7
gtagagtaac-ttagaggagtgat-gatatcatcgatggttaatcacgaaaaagatagcagtgacagagcattctga--tggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
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-----ttaatgttggagctgcatttggcatgatagaaacttgtgta-aatagcgatagctatatttatttattttttccttaaaaatcctctttaatctgtttcagCTGTTGGGAGACATATTACTTGATCGTTCAAATTCTGTTGTGATGACAAGATATGTGAGCTCAAGGGATAACTTGAGGATTCTTATGAATCTACTCAGAMapped 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|164042450|gb|ES081834.1|ES081834EST: CTAATTATATTACCCGACGGCAAGTCTATTAAG TTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAA
genomic: CTAATTATATTACCCGACGGCAAG-CTATTAAGgtagagtaac ... aattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAA
EST:
gi|86088108|gb|DR383867.1|DR383867EST: CAAAGCTTCTTGAATCAACTAATTATATTACCCGACGGCAAGCTATTAAG TTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAG
genomic: CAAAGCTTCTTGAATCAACTAATTATATTACCCGACGGCAAGCTATTAAGgtagagtaac ... aattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAG
EST:
gi|116482972|gb|EG525564.1|EG525564EST: CAA-GCTTCTTGAATCAACTAATTATATTACCCGACGGCAAGCTATTAAG T-GT-GGGCGATATATTAT
genomic: CAAAGCTTCTTGAATCAACTAATTATATTACCCGACGGCAAGCTATTAAGgtagagtaac ... aattttacagTTGTTGGGCGATATATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagatagcagtgacagagcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
ttctgat putative branch site (score: 3)
attgtaatgtgtaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagtaacttagaggagtgatgatatcatcgatggttaatcacgaaaaagatagcagtgacagagcattctgatggattgtaatgtgtaaaattttacagTTGTTGGGCGATATATTATTGGATAGGTCAAATTCGGCTGTGATGACGAAGTATGTGAGCTCGATGGATAACTTGAGGATTCTGATGAATCTTCTCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT