Sequence
atgc intronic sequence ATGC exonic sequence...ggtaatgctttttgttgcttctgataactgtgcatttgaattatcaatcttaatgtctacattttaataaactttattgtgtgactacctattgtgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
Basic information
species | Glycine max |
transcript | GLYMA18G47190.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47190.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G813909_T01 (Zea mays), 3'ss of exon 4
-----ggtaatgctttttgttgcttctgataactgtgcatttgaattatca-atcttaatgtctacattttaata---aactttattgtgtgactacctattgtgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
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gtgctggagaaacaacttgtcatct------agagcacaaatga-ttgtcatatactcatatctactatttgatgtggagcagtaatgcat-acttcatgaaatgcagATTACAGACTTGCCGTTCTCTCTCTATTCAACTTTTGTTATAGAGGCTCGACATGGTTTTAACAAG-
upper sequence: GLYMA18G47190.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G01320.1 (Arabidopsis thaliana), 3'ss of exon 4
ggtaatgctttttg-ttgcttctgataactgtgcatttgaattatcaatcttaatgtctacattttaataaactttattgtgtgactacctattg-tgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
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-gtgttccaaataaaccccttcatatagtcctatacgtttagcatcaa----aatatctattttcttaagataataatatttcttttatattctgatgcagATCACTGATTTGCCATTTTCTTTGTACTCAACTTTCGTGATCGAGTCTCGGCATGGGTTCAACAAA-
upper sequence: GLYMA18G47190.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0046g02040.t01 (Vitis vinifera), 3'ss of exon 4
ggtaatgctttttgttgcttctgataactgtgcatttgaattatcaatcttaatgtctacatt--ttaataaactttattgtgtgac-tacctattgtgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
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--ttactttttgaatggatattcacatgtatgcactggaatggttatatttgtattctactttaatcaagcgacaacattttgttttgtaattttcttgcagATTACTGATTTGCCATTTTCTCTATACTCAACTTTTGTGATTGAGGCCCGCCATGGTTTCAACAAA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcttaatgtctacattttaataaactttattgtgtgactacctattgtgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
ttttaat putative branch site (score: 3)
taatgtctacatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtaatgctttttgttgcttctgataactgtgcatttgaattatcaatcttaatgtctacattttaataaactttattgtgtgactacctattgtgcagaTAACTGATTTGCCCTTTTCTCTGTACTCAACTTTTGTGATTGAGGCCCGTCATGGTTTTAACAAGG
-gtaatgc
- - - - - - tgttgct
- - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgac