Sequence
atgc intronic sequence ATGC exonic sequence...aatatgtttgtcctttgctacattttttctctctagcttgtacttgtgaagtattatgtgaaaggtgagataatttgtaagcaacttgtccgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
Basic information
species | Glycine max |
transcript | GLYMA05G28400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14040.1 (Arabidopsis thaliana), 3'ss of exon 3
aatatgtttgtcctttgctacattttttctctctagcttgtacttgtgaagtattatgtgaaaggtgagataatttgtaagcaacttgtccgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
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------gtaacattacaccaacataaatgttgatgatctgtgttagtaaccaagtatgtaagcttattgggtttttgttgttatgtggt------tgcagATCAGATTCTTGCATGATCCTTCTAAAGATACAGGGTATGTTGGGAGTGCTTTGTCTAGTAATATGATAAGGTTTTTCAAGAACAGTGATGACACGTGGA
upper sequence: GLYMA05G28400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14030.1 (Arabidopsis thaliana), 3'ss of exon 4
aatatgtttgtcctttgctacattttttctctctagcttgtacttgtgaagtattatgtgaaaggt-gagataatttgtaa--gcaacttgtccgaaat-gcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
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gtaacatatctctttcaaaatatgatctgtatttttctttcaggtgatataaatggaaggaagtatcgtgaccggttgttgttataacttatatgtggttgcagATTAGATTCTTGCATGATCCATCTAAAGATACAGGGTTTGTTGGGAGTGCCTTGTCGAGTAATATGATAAGATTTTTCAAGAACAGTGATGAAACATGGA
upper sequence: GLYMA05G28400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------aatatgtt-tgtcctttgctacattttttctctctagcttgtac----ttgtgaagtattatgtgaaaggtgagata-----atttgtaag--caacttgtccgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
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gtgagttttggaaatataatccaccattgctttgctttttggttaagaaatagcaaatgctacatttttttctctaattttgcatgttattatgaccatatgtgttaacggtttactatctacatgtgtatcttcaatctttcttgcttgcagATAAGATTCCTGCATGATCCTTCTAAAGATACAGGGTTTGTAGGTTGTGCCTTAACAAGCAACATGGTGCGATTTTTCAAGACCCCAGATGGGTCATGGAMapped 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|7145625|gb|AW507547.1|AW507547EST: AACTGAGACAAACATTGGACCTTGGTGAGTCAGGGCTTCTACCCTTGGAG GTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCA
genomic: AACTGAGACAAACATTGGACCTTGGTGAGTCAGGGCTTCTACCCTTGGAGgtacattgtt ... cgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaagtattatgtgaaaggtgagataatttgtaagcaacttgtccgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
cttgtcc CT-rich tract
ataatttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatatgtttgtcctttgctacattttttctctctagcttgtacttgtgaagtattatgtgaaaggtgagataatttgtaagcaacttgtccgaaatgcagGTAAGATTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTTGGGTGTGCATTGTCAAGTAACATGGTACGCTTTTTCAAGACTGAAGATGAATCATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - tgtttgt
- - - - - -cctttgc
- - - - - - - - - - - - - - - - - - - - -acttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtaagc