Sequence
atgc intronic sequence ATGC exonic sequence...ttatgcagttaccagataactgtaaaataatgcatttatcagataactgtttttgaaaagtatttgtatttcataattgattgggtaatatatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
Basic information
species | Glycine max |
transcript | GLYMA18G43310.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g28200.1 (Oryza sativa), 3'ss of exon 3
-ttatgcagttaccagataactgtaaaataatgcatttatcagataactgtttttgaaaagtatttgtatttcataattgattgggtaatatatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
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gatatgcatctttttctctttttgcaatcaatatgttcatgtatggaaacaactaatgctatattgctaatcaattaactctttcacatggtgca-tatagGACATATGGAAGATTCGCCTTCAACTTACTAAGCCAGTGACATGGCCTCCGCTTGTATGGGGAGTGCTTTGTGGAGCAGCTGCCTCTG
upper sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G162672_T01 (Zea mays), 3'ss of exon 3
ttatgcagttaccagataactgtaaaataatgcatttatcagataactgtttttgaaaagtatttg-tatttcataattgattgggtaatata-tggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
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-agcatggatacctctttaaccttttgcaatctagccatttg-tgtctaaaactggaaactatgcaatattaatcaatgtcctctttcatatggcggcacagGACATATGGAAGATCCGTCTTCAACTTACTAAGCCGGTGACATGGCCTCCGCTTGTTTGGGGAGTTCTCTGTGGAGCAGCTGCCTCTG
upper sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 3
----------------------------------------------------------------ttatgcagttaccagataactgtaa---------------aataatgcatttatcagataactgtttttgaaaagt-atttgtatttcataattgattgggtaatatatggtg----cagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
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gtaattttgttcatctcctcagaatcttttaaattatcatatttgtggataatgatgtgttagtttaggaattttcctactaaaggtaatctcttttgaggacaagtcttgtttttagcttagaaatgatgtgaaaatgttgtttgttagctaaaaagagtttgttgttatattctgtattcagAATAAATGGAAGATTCGTCTTCAGCTTACAAAACCAGTCACTTGGCCTCCACTGGTTTGGGGAGTCGTCTGTGGTGCTGCTGCTTCAG
upper sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 3'ss of exon 3
--ttatgcagttaccagataactgtaaaataatgcatttatcagataactgtttttgaaa-agtatttgtatttcataattgattgggtaat--atatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
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cagtttggaggtgtttttttttattagaa--agacatttagcag--aattatatgaagattaaaatctgcaact-agagttgattgtatgatttgtattgtgcagAATAAATGGAAGATTCGTCTTCAACTTACAAAGCCTGTTACTTGGCCCCCGTTGGTTTGGGGAGTGGTTTGTGGAGCTGCTGCTTCTGMapped 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|8284537|gb|BE022105.1|BE022105EST: GTTCAAGCTTCAACCAGCTCCTTGGTATTAAAGGAGCTTCCCAAGAAACA AATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCA
genomic: GTTCAAGCTTCAACCAGCTCCTTGGTATTAAAGGAGCTTCCCAAGAAACAgtgagtctaa ... tatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCA
EST:
gi|192327509|gb|FK017840.1|FK017840EST: GTTCAAGTTTCAACCAGCTCCTTGGTATTAAAGGAGCTTCCCAAGAAACA AATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCA
genomic: GTTCAAGCTTCAACCAGCTCCTTGGTATTAAAGGAGCTTCCCAAGAAACAgtgagtctaa ... tatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtttttgaaaagtatttgtatttcataattgattgggtaatatatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
ttttgaaaagtatttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatgcagttaccagataactgtaaaataatgcatttatcagataactgtttttgaaaagtatttgtatttcataattgattgggtaatatatggtgcagAATAAGTGGAAGATTCGTCTTCAACTTACAAAGCCAGTCACTTGGCCTCCATTAGTTTGGGGTGTAGTTTGTGGAGCTGCTGCTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- -tgcagtt
- - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaagta