Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttggatttggaatatgatcatcatttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
Basic information
species | Glycine max |
transcript | GLYMA01G43470.4 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G43470.4 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g46750.4 (Oryza sativa), 3'ss of exon 7
gtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttggatttggaatatgatcatcat-ttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
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---------------gtaagcaccgttacatgtttactgatccctcttggattttgatttt---ttgaacctgtgatgactatcttaaaaatttggttcagGATGTTAAGCTGCTTGTTGAAGATATTGGGACACTGAAACCAACTATCTTGTGTGCTGTTCCACGTGTGCTTGACCGGATATTTTCTG
upper sequence: GLYMA01G43470.4 (Glycine max), 3'ss of exon 10
lower sequence: AT4G11030.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttgg-atttggaatatgatcatcatttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
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gtgagtggatacagctca------------aatctgaccttcctactagttattaaattttaatatatgcattata--tatt-tctatactatgtccttagGATGTCAAATTGTTGATTGAAGACCTTGGTGAGCTAAAACCAAGTATCTTTTGCGCCGTTCCTCGTGTCCTAGATCGAGTATACACAG
upper sequence: GLYMA01G43470.4 (Glycine max), 3'ss of exon 10
lower sequence: AT4G23850.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttggatttggaatatgatcatcatttactcaatggctgt--agGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
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---------------------gtcagtagagtttgaacctttttatt--taaaccagttttgaattcctcac-ttataattctctccgggttgtctcctcagGATGTAAAATTGTTGATCGAAGACCTTGCTGAGCTTAAACCAACTATTTTTTGTGCTGTACCTCGTGTCCTGGATAGAGTATACTCAG
upper sequence: GLYMA01G43470.4 (Glycine max), 3'ss of exon 10
lower sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 10
gtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttggatttggaata-tgatca-tcatttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
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----------gtaagacagct----------aatgcattttttttcttctcctcgaa-tcagtgttcaatatagtaattggtcatttgcccca--atttcagGATGTCAAATTATTGGTTGAAGACATTGGGGAGCTAAAACCGACTATTTTCTGTGCTGTTCCTCGCGTATTAGATAGGATATATTCAGMapped 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|19346911|gb|BM891799.1|BM891799EST: TTGAGGAAACATTCATATGGCATGGTGCTTCAATANGTTTCTGGCGTGGG GATGTCAAATTGTTAATTGAA
genomic: TTGAGGAGACATTCATATGGCATGGTGCTTCAATAGGTTTCTGGCGTGGGgtgagtatat ... atggctgtagGATGTCAAATTGTTAATTGAA
EST:
gi|6666183|gb|AW277642.1|AW277642EST: TTGAGGAGACATTCATATGGCATGGTGCTTCAATAGGTTTCTGGCGTGGG GATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTC
genomic: TTGAGGAGACATTCATATGGCATGGTGCTTCAATAGGTTTCTGGCGTGGGgtgagtatat ... atggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaataattgaactttggatttggaatatgatcatcatttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
aatatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatatgtagtatatctgtcattacgaaatgaacatttgatgtaataattgaactttggatttggaatatgatcatcatttactcaatggctgtagGATGTCAAATTGTTAATTGAAGATGTTGGCGAACTAAAACCAACTATTTTCTGTGCTGTTCCCCGTGTGCTTGATAGAGTGTACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT