Sequence
atgc intronic sequence ATGC exonic sequence...gcttatagtggtgttagcttttcatccaatatttttttaggtgttaggttttatattttgggagcttattatatatttgttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
Basic information
species | Glycine max |
transcript | GLYMA02G26820.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g38850.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------------------------------------gcttatagtggtgttagcttttcatccaatatttttttaggtgttaggttttatattttgggagcttattat-atatttgttc-------atgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
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gtaaaatagtcaccggaaaattctttatgcttaatcagtaccaattagctttatttttagatattagatatcctctgcctatcaaattggtaaaagttctgttacatctcattgcagacagattcagagatgatcattatatctaatgccatatgatatctttctatctgcagCTCGCCTGTTGCTTTCATTACATGCTTCGTGACTTTATTTGCTTTGGTCATTGCTATAACCAAAGATCTCCCAGATGTTGAAGGGGATCGGAA
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G113476_T03 (Zea mays), 3'ss of exon 5
-------------------------------------------------------gct-tatagtggtgttagcttttcatccaatatttttttag--gtgttaggttt-----tatattttgggagcttattat-atatttg------ttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
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gtaaatagtcactggaaatttctttggaactgtttctgcataaagggtatatttagctattccgtaatccatgtcccttacctagcagtagtaaagttgtgcttcatctactgacattcattcagagatgaacatcatatttaacctgtttggtatttttatatatgcagCTCCCCTGTTGCTTTCATTACATGCTTCGTGACACTATTTGCTTTGGTCATTGCTATAACCAAAGATCTCCCTGATGTTGAAGGAGATCGCAA
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G11945.1 (Arabidopsis thaliana), 3'ss of exon 5
--gcttatagtggtgttagcttttcatccaatatttttt-taggtgttaggttttatattttgggagcttattatatatttgttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
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aaattagtcaaactttgtactcacaatgagagaggaactgtaggagctccccataatcgtgagtagatatattactcaacttttgat---tcgctatttgcagTGCACCTGTGGCGTTCATCACATCTTTTGTGACACTGTTTGCACTGGTCATTGCTATTACAAAGGACCTTCCTGATGTTGAAGGAGATCGAAA
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g07200.t01 (Vitis vinifera), 3'ss of exon 5
gcttatagtggtgt--tagcttttcatccaatatttttttaggtgttaggttttatattttgggagcttattatatatttgttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
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aatgttacttgtgccatagcatttaagttgtgattatcatcc-caatattcccaactgttaagaaacttccta-acttcaacaatttaatttgtacctgcagTGCACCTGTGGTTTTCATCACAACCTTTGTGACACTGTTTGCACTGGTTATTGCCATAACGAAAGATCTTCCAGATGTTGAGGGTGACCGCAAMapped 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|192309721|gb|FK002917.1|FK002917EST: GGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG CTCTCCTGTGGTTTTTAT
genomic: GGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAGgtgggtttga ... ttgcctgcagCTCTCCTGTGGTTTTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggttttatattttgggagcttattatatatttgttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
tctttgcct CT-rich tract
ttattatatatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttatagtggtgttagcttttcatccaatatttttttaggtgttaggttttatattttgggagcttattatatatttgttcatgtatctttgcctgcagCTCTCCTGTGGTTTTTATCACAACATTTGTAACATTTTTCGCACTGGTAATTGCTATAACAAAAGATCTTCCTGATGTTGAAGGAGATCGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - agtggtg
- - - - -ggtgtta
- - - - - - - - - - -tcatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgggag