Sequence
atgc intronic sequence ATGC exonic sequencegtacattgcttaataaataattctggagttatttccaccaattataagcactttatgttaatgtacttgtgatttaatcataaatatgtttgtcctttgctacattttttctctctagcctgtacttgtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
Basic information
species | Glycine max |
transcript | GLYMA08G11400.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G11400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14040.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacattgcttaataaataattctggagttatttccaccaattataagcactttatgttaatgtacttgtgatttaatcataaatatgtttgtcctttgctacattttttctctctagcctgtacttgtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
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----------------------------------------------------------------------------------------gtaacattacaccaacataaatgttgatgatctgtgttagtaaccaagtatgtaa------gcttattgggtttttgttgttatgtggttgcagATCAGATTCTTGCATGATCCTTCTAAAGATACAGGGTATGTTGGGAGTGCTTTGTCTAGTAATATGATAAGGTTTTTCAAGAACAGTGATGACACGTGGA
upper sequence: GLYMA08G11400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14030.1 (Arabidopsis thaliana), 3'ss of exon 4
gtacattgcttaataaataattctggagttatttccaccaattataagcactttatgttaatgtacttgtgatttaatcataaatatgttt-gtcctttgctacattttttctctctagcctgtacttgtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
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----------------------------------------------------------------------------gtaacatatctctttcaaaatatgatctgtatttttctttcaggtgatataaatggaaggaagtatcgtgaccggttgttgttataacttatatgt---ggttgcagATTAGATTCTTGCATGATCCATCTAAAGATACAGGGTTTGTTGGGAGTGCCTTGTCGAGTAATATGATAAGATTTTTCAAGAACAGTGATGAAACATGGA
upper sequence: GLYMA08G11400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 3'ss of exon 4
gtacattgcttaataaataattctggagttatttccaccaattataagcactttatgttaatgtacttgtgatttaatcataaatatgtttgtcctttgctacattttttctctctagcctgtacttgtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
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---------------------------gtgagttttggaaatataatccaccattgctttgctttttggttaagaaatagcaaatgc-tacatttttttctctaattttgcatgttattatgaccatatgtgttaacggtttactatctacatg-tgtatcttcaatctttcttgcttgcagATAAGATTCCTGCATGATCCTTCTAAAGATACAGGGTTTGTAGGTTGTGCCTTAACAAGCAACATGGTGCGATTTTTCAAGACCCCAGATGGGTCATGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
tcctaaa putative branch site (score: 2)
cttgtcct CT-rich tract
taatatgttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacattgcttaataaataattctggagttatttccaccaattataagcactttatgttaatgtacttgtgatttaatcataaatatgtttgtcctttgctacattttttctctctagcctgtacttgtgaagtaatatgttaaaggtggcataatttgtaagcaacttgtcctaaatgcagGTAAGGTTTCTGCATGATCCTTCTAAAGATACAGGTTTCGTGGGGTGTGCATTGTCAAGTAACATGGTACGGTTTTTCAAGACCGAGGATGAATCATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA