Sequence
atgc intronic sequence ATGC exonic sequence...taaagagcacgcaggattcctttggagctggttttctgggtcttgaattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT
Basic information
species | Glycine max |
transcript | GLYMA08G01990.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G01990.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G060564_T04 (Zea mays), 3'ss of exon 4
------taaagagcacgcaggattcctttggagctggttttctgggtcttgaattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT----
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ttggggcaatatggatgcaagtccccattt---cttacatgaaaacctctgatgtttttgtctctctatcttctaacctaagtaaggcc---tgctttcttttcagGTGTTCCTTTGCTTTGGCAATTCAGTTGCATCAACCCGCTTCTTGCTGCAAGATGAATTTAACATACAGACCACTCAGTGTGACAACTGCATCATTGTAA
upper sequence: GLYMA08G01990.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G060564_T02 (Zea mays), 3'ss of exon 4
------taaagagcacgcaggattcctttggagctggttttctgggtcttgaattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT
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ttggggcaatatggatgcaagtccccattt---cttacatgaaaacctctgatgtttttgtctctctatcttctaacctaagtaaggcc---tgctttcttttcagGTGTTCCTTTGCTTTGGCAATTCAGTTGCATCAACCCGCTTCTTGCTGCAAGATGAATTTAACATACAGACCACTCAGTGTGACAACTGCATCATT
upper sequence: GLYMA08G01990.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g00130.t01 (Vitis vinifera), 3'ss of exon 4
---taaagagcacgcaggattcctttggagctggttttctgggtcttgaattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgttt---cagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT
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gtgtaacaaattcat-ggattctttt--agtcagttcactgaggctttg-tcaattatcctgatgtgacaa--ttattccaagcttcttttccactttttgtttagGTTCTCCTCTGCTTTGGAAATTCGGTAGCATCAACCCGCTTTCTGTTGCAAGATGAGTTCAACATACAGACAACAAAATGTGACAATTGCATCATTMapped 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|192308244|gb|FK002756.1|FK002756EST: GTGGTAGGTGTGGAGAGAGTAAATGT-CTGAATTTTGCCTTTGCACTGAG GTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
genomic: GTGGTAGGTGTGGAGAAAGTAAATGTCCTGAATTTTGCCTTTGCACTGAGgtataaaaat ... gctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
EST:
gi|207836417|gb|GD808318.1|GD808318EST: GTCCTGAATTTTGCCTTTGCACTGAG GTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
genomic: GTCCTGAATTTTGCCTTTGCACTGAGgtataaaaat ... gctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
EST:
gi|192302560|gb|FG996296.1|FG996296EST: ATTTTGCCTTTGCACTGAG GTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
genomic: ATTTTGCCTTTGCACTGAGgtataaaaat ... gctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT
ctgtttc CT-rich tract
tttatttatacctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaagagcacgcaggattcctttggagctggttttctgggtcttgaattttctgtggttttgtagcatgctttatttatacctatgtgtcgctgtttcagGTTTTCCTCTGCTTTGGAAATTCAGTCGCCTCAACTCGCTTTCTATTGCAAGATGAATTTAACATTCAAACTACGCAATGTGATAATTGCATTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG