Sequence
atgc intronic sequence ATGC exonic sequence...gaaatataataatattcttggtggaacataaatttggtacgtttcttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
Basic information
species | Glycine max |
transcript | GLYMA07G38820.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os03g52460.1 (Oryza sativa), 3'ss of exon 12
gaaatataataatattcttggtggaacataaatttggtacgtttcttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
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gtcagatattttcattttcactgc--tagaagcataaaacaccaacggaatg-gccttc--caaattacataaaatatttc-tgttccattgtcctgcagGATACAGTAATGCTTGGTGCTGATTTCTATGAGACTGATCTGGAAAGAGGAGAACTGCTGGCTGAAGGAAAGGTTCCTATTGGAATCGGGGAGAATACAA
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G391936_T01 (Zea mays), 3'ss of exon 8
------------------------------------------gaaatataataatat-tcttggtggaacataaatttggtacgtttcttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
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gctagatctcttcctttgttgcctggagtatttcattacacagatatagagaaacaagtattagttgt-catagatttggtccaatgttc-----tgtagttagcggctaatgtatctttt----catcttttttccctgcagGATACTGTAATGCTTGGCGCTGATTATTATGAAACTGCCGTGGAAAGAGGAGAGCTGCTTGCAGAAGGAAAAGTTCCTATTGGGATTGGAGAGAATACAA
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 12
lower sequence: AT5G19220.1 (Arabidopsis thaliana), 3'ss of exon 12
-gaaatataataatattcttggtggaacataaatttggtacgtttcttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
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gtaggcaaaacgagtatctttctaaatcataatgaaaggac----------tagactctaagactgtatgatgatctaaa----attatggaaat-tctagGACACTGTGATGCTTGGGGCAGATTACTACGAAACTGAAGCAGAAGTTGCAGCACTACTTGCTGAGGGAAACGTTCCCATTGGAATAGGAGAGAACACAA
upper sequence: GLYMA07G38820.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv05s0020g02880.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------gaaatataataatattcttggtggaac---ataaatttg------gtacgtttcttacgtgtgccctcatctagttctataacttctagcgcat---tacacttata-------------tgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
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gtttgttctataaattccatcaatatgattgtaaatgaacccatcactctgctgcataaaatgatacaaatttgaagtctgcattgtgcttttatgtgattctgttgtgctctaaatcaatcaaggtatgagtacccttatgagggcctaatgcttgcagGATACTGTGATGCTTGGTGCTGACTACTATGAAACCGACTCTGAAGTGGCATCACTGTTGGCTGAGGGGAGGGTTCCTATTGGAATAGGAGAAAATACAAMapped 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|120495131|gb|EH223298.1|EH223298EST: ACAGTGTTGTTGGAATCAGATCCAGAATAAACTCAAATATTCACTTAAAG GATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCA
genomic: ACAGTGTTGTTGGAATCAGATCCAGAATAAACTCAAATATTCACTTAAAGgtttggtgaa ... ttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
ttctataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaatataataatattcttggtggaacataaatttggtacgtttcttacgtgtgccctcatctagttctataacttctagcgcattacacttatatgcagGATACAGTGATGCTTGGTGCTGATTATTATGAAACCGATGCAGAAGTGGCAGCACTCTTAGCTGAAGGAAGAGTTCCAATTGGAATAGGAGAAAATACAA
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