Sequence
atgc intronic sequence ATGC exonic sequence...agttgttgtattttcttcatataggatctttaatatatttgaaagaataattaatatagtttaatagtagtactaaatactattattattttcttggaagTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
Basic information
species | Glycine max |
transcript | GLYMA08G47070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G47070.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os05g43040.1 (Oryza sativa), 3'ss of exon 1
-agttgttgtattttcttcatataggatctttaatatatttgaaagaataattaatatagtttaatagtagtactaaatactattattattttcttgga--agTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
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taattcaggattagtagagacacaagaa-tttactgaagttctcacagaattcagtagtagttgctaacctcggcaaa-acaact-tcgtttcgatgaatcagCTTGTCGATAAGGATCCGGAGACAGCCATCGTGTGGTTCTGGAAGGCGATCAACTCCAGGGACAAGGTGGATAGTGCCCTGAAGGACATGGCTGTGGTGA
upper sequence: GLYMA08G47070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G48850.1 (Arabidopsis thaliana), 3'ss of exon 1
agttgttgtattttcttcatataggatctttaatatatttgaa---agaataattaatatagtttaatagtagtactaaatactattattattttcttggaagTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
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--gaatcatatcctaattggtcaaatacatgaatatatttctatatgagaagagtaaagtaattggttattaataattagta-tgtcttaatgttggttgcagTTGATAGAGAAGAACCCGGAGATGGCAATAGTGTGGTTTTGGAAAGCCATCAACACTGGAGACAGAGTAGACAGTGCCCTCAAGGACATGGCTGTTGTAA
upper sequence: GLYMA08G47070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g05680.t01 (Vitis vinifera), 3'ss of exon 1
---agttgttgtattttcttcatataggatctttaatatatttgaaagaataattaatatagtttaata-gtagtactaaatactattattattttcttggaagTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
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caaattaacttgacatgcatcattt---gttcgttatctagcgaaagcaatatgtgttatggattaatatatacaattttgttttgttttcatggtag-gacagCTGGTTGAGAAGGATCCTGAAGTAGCTATAGTATTGTTTTGGAAGGCAATAAATGCAGGAGATAGAGTAGATAGTGCGCTTAAGGACATGGCAGTAGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataattaatatagtttaatagtagtactaaatactattattattttcttggaagTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
tactaaa putative branch site (score: 1)
ttattttctt putative PPT
ttaatatagtttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttgttgtattttcttcatataggatctttaatatatttgaaagaataattaatatagtttaatagtagtactaaatactattattattttcttggaagTTGGTTGATAAGGACCCAGAAGCAGCAATAGTGTTGTTTTGGAAGGCAATAAATTGTGGGGATAAAGTGGACAGTGCCCTGAAGGACATGGCTGTTGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
-gttgttg
- - - - - - - - - - - - - - - - - - - - - aagaataa