Sequence
atgc intronic sequence ATGC exonic sequenceTTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctactcttctctggacaaggattttatgtcattcattgttcgtatgcattgttttctttgtgccctttcacatttagctaacttgcac...
Basic information
species | Glycine max |
transcript | GLYMA05G09360.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G406553_T04 (Zea mays), 5'ss of exon 2
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctact-----cttctctggacaaggattttatgtcattcattgttcgtatgcattgttttctttgtgccctttcacatttagctaacttgcac-
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CTGCCTCAAGATTGGGAGGAAGACCTCACGGGTTCTTGTCACCGGAGGAGAGGATCATAAGGTCAATCTTTGGGCTATTGGGAAGCCCAATTCAATTCTGgtaagacttatttggctagtgctgtttctatgtatggagtgattgtaaactgtggctc-----catggttgagtaggaaaacaga-accctttgctgactttgaag
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G160702_T01 (Zea mays), 5'ss of exon 2
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgt----tcgttctcctctactcttctctggacaaggattttatgtcattcattgttcgtatgcattgttttctttgtgccctttcacatttagctaacttgcac--
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CTGCCTCAAGATTGGGAGGAAGACCTCGCGGGTTCTTGTCACAGGAGGAGAGGACCATAAGGTCAATCTTTGGGCTATTGGGAAGCCCAATTCAATACTGgtaagactgtttttctagttctgtttctacgtatggactgattgtaaactgcggctc-----cacagttgggtaggaaaacaaa-actcttaactcacttgaaaaa
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G08390.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctactcttctctgga--caaggattttatgtc---attcattgttcgtatgcattgtt---ttctttgtgccctttcacatttagctaacttgcac--------------------------------------
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TTGTCTTAAGATTGGGAGGAAGTCCTCCAGGGTTCTCGTTACAGGCGGAGAAGATCACAAGGTTAATCTATGGGCTATTGGTAAGCCCAACGCCATCCTGgttagttctcatttctccctcccctgcttctattgcggaatgcctcggtatatagtttaggggaaatgcgacatactttagatataatgtagttgagcgggttggaatattttctgtctgagtacttgtggttgttttgtggtcag
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 5'ss of exon 3
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcc-tctact-cttctctggacaaggattttatgtcattc-attgttcgtatgcattgttttctttgtgccctttcacattta-gctaacttgcac----
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TTGTCTTAAGATCGGAAGGAAGTCTTCTAGGGTTCTGGTAACAGGTGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGTAAGCCCAATGCCATTCTGgtcagttctcggtctactgtttcattatgtgttggttataagttagtagagtgtttctatgggattcactctttctgag-tatctcatttgtgcttgtttgttgtcag
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 5'ss of exon 2
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctactcttctctggacaaggattttatgtcattcattgttcgta-tgcattgttttctttgtgcc-----ctttcacatttagctaacttgcac
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CTGTCTCAAGATTGGGAGGAAGTCATCCAGGGTTCTTGTCACCGGTGGAGAAGATCACAAGGTGAATCTTTGGGCCATCGGCAAGCCCAATGCCATACTGgtaactacttct-tactctctctttctcttctattctgatttccccctttttcgtaatccatcgtttcgcatcggctgggaatttcaatatttggtggata-----
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S9_241V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctactcttctctggacaaggattttatgtcattcattgttcgtatgcattgttttctttgtgccctttcacatttagctaa-cttgcac--------
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CTGCCTCAAAATTGGAAAGAAGTCCTCCAGGGTCCTGGTCACGGGCGGGGAGGATCACAAAGTTAACATGTGGGCTATTGGCAAACCTAATGCTATACTGgtatgctcgac------cttttccatatttgcattgtctgtcgtatcct-ttcgt-tacgatgtcgtcatggc-cagtcaatgacgtagctaggtttgaatttcgaattMapped 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|193724235|gb|FK662283.1|FK662283EST: AAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTG AGCCTGTCAGGACATTCAAGTGGAATAGATTCTGTAAGCTTTGATTCCTCT
genomic: AAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctc ... cctcttgcagAGCCTGTCAGGACATTCAAGTGGAATAGATTCTGTAAGCTTTGATTCCTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGCCTCAAGATTGGACGGAAATCATCCAGGGTTCTTGTCACTGGAGGTGAAGATCACAAGGTCAATCTTTGGGCTATTGGCAAACCTAATGCCATACTGgttcgttctcctctactcttctctggacaaggattttatgtcattcattgttcgtatgcattgttttctttgtgccctttcacatttagctaacttgcac
- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctttc