Sequence
atgc intronic sequence ATGC exonic sequenceTTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaattcagaaatttactaaatagtgaaatatt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G59610.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os06g13820.1 (Oryza sativa), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaattcagaaatttactaaatagtgaaatatt-----
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TTATCAACCGTACCTGATATCTCCAGAGAAAGGGTTGAGGTCCTTGATAAAGATAGTATTGGATATGGCAAAGGAGCCATCACGACTCTGTGTTGAAGAGgtatgttc----tactttattcaaataaagtcttgttaccaataaaa-atataacatgtttagatctgttcctttttttcctctcaaggctaagaacgttgtaga
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G157462_T01 (Zea mays), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagt--gtttatagcttaactggtgttgtcttcctcttg-tttgagatgcgtagcattgaaattcagaaatttactaaatagtgaaatatt
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TTATCAACCATATTTGATATCTCCAGAGAAAGGGTTGAGATCCTTAATAAAAATAGTACTGGAAATGGCAAAGGAGCCATCACGACTATGTGTTGAAGAGgtacgccccaaataatcagtaagaaaataaaccaccagaattatgtgttagcttctacacatttacttttgttctcccctaccc--ctcaagagacaaacaa-
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA07G40300.1 (Glycine max), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaa-----ttcagaaatttactaaatagtgaa-atatt
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ATATCAACCTTATCTTATCTCTCCAGAGAAAGGTTTGAGATCCTTAATTAAAGGCGTTCTTGAACTGGCAAAGGAGCCATCACGACTGTGTGTTGATGAGgtatgcttctaat-gtgtt----gtcttgttgatttttttttcaagagctaaaggttacatatgtttaaaaggatttcccgaaatagtttgggtagtggttacaa-
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA17G00480.1 (Glycine max), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgtt--gtcttcctcttgtttgagatgcgtagcattgaaattcagaa--atttactaaatagtgaaatatt
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ATATCAACCTTATCTGATCTCTCCAGAGAAAGGTTTGAGATCCTTAATTAAAGGCGTTCTTGAACTGGCGAAGGAGCCATCACGATTGTGTGTTGATGAGgtatgcttctaat-gtgttgttgatttttcttttttcaagagctattaatgttacagatgtttgaaagtattgtccaaaatagtttgggtagtggttacaa---
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgttta-tagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaattcagaaatttactaaatagtgaaatatt-
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TTATCAACCTTATCTTATATCTCCAGAAAAAGGTTTAAGGTCTCTAATAAAAATTGTCCTGGAGCTGGCGAAAGAGCCATCACGCCTTTGTGTTGATGAGgtaa--ccatatcactctccagttgaatgttcaagtttatgcaccagggactgtagtcctgcattgtttattttattttattttatctttttagactttttg
upper sequence: AT1G59610.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv18s0089g00350.t01 (Vitis vinifera), 5'ss of exon 10
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaattcagaaatttactaaatagtg-aaatatt------
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TTATCAACCATATCTTATATCTCCTGAGAAAGGTTTGAGATCGTTAATAAAAGGTGTCTTGGAGCTTGCAAAAGAGCCATCACGGCTTTGTGTTGATGAGgtaagg----ataattattcataactt--ctgagtttccccttcttttgaa-gaatggatttgaatagccttgcggagttgctttcgatatttcagatgctttgctgMapped 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|125050910|gb|EL123179.1|EL123179EST: CTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAG GTTCACCGAGTGCTTGTTGACATAGTTTCAGCTTCCGCGAA
genomic: CTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccat ... ttcttattagGTTCACCGAGTGCTTGTTGACATAGTTTCAGCTTCCGCGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTATCAACCTTATCTCATATCTCCAGAGAAAGGGTTGAGATCGTTAATAAAAACCGTTCTTGAGTTGGCTAAAGACCCAGCACGACTATGTGTTGATGAGgtgtgtccatgttagtgtttatagcttaactggtgttgtcttcctcttgtttgagatgcgtagcattgaaattcagaaatttactaaatagtgaaatatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcttgt