Sequence
atgc intronic sequence ATGC exonic sequencegttagtgaattgaattgaattgactcactaattctttgtttgtgtttgtttggctttggattttgattgatgggtttggagttgttgttgttgcagAGATTTCGTGTTGGATGTGGAGCGGGGAGCGGCAATCGACCAAGATGAGAATCAAGTATCTGGAGGCTGCCTTAAACCAGGACATTCAGTTCTTCGACAC
Basic information
species | Glycine max |
transcript | GLYMA19G36820.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G36910.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtgaattgaattgaattgactcactaattctttgtttgtgtttgtttggctttggattttgattgatgggtttggagttgttgttgttgcagAGATTTCGTGTTGGATGTGGAGCGGGGAGCGGCAATCGACCAAGATGAGAATCAAGTATCTGGAGGCTGCCTTAAACCAGGACATTCAGTTCTTCGACAC
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gttagaaga---aagttacttaaagatctaaacttttatac-tgttctcttgatct--gattcggttt--taaatatgg---tttcgttgttgcagAGATTTCGTGTTGGATGTGGAGTGGAGAGAGACAAACAACGAAGATGAGGATTAAGTATTTAGAAGCAGCTTTGAATCAAGACATTCAGTTCTTTGATAC
upper sequence: GLYMA19G36820.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g05060.t01 (Vitis vinifera), 3'ss of exon 2
gttagtgaattgaattgaattgact-cactaattctttgtttgtgtttgtttggctttggattttgattgatgg--gtttggagttgttgttgttgcagAGATTTCGTGTTGGATGTGGAGCGGGGAGCGGCAATCGACCAAGATGAGAATCAAGTATCTGGAGGCTGCCTTAAACCAGGACATTCAGTTCTTCGACAC
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----gtgagttgaaattctttctctgtatttgttctgttctactgtgactatggtcttggttttggttgtatagttgcttgaattcgtt----tttcagAGATATCGTGTTGGATGTGGACCGGAGAGAGGCAATCCACCAAGATGAGGATCAAGTACCTAGAAGCGGCTTTGAACCAGGACATTCAGTTTTTTGACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtttgtttggctttggattttgattgatgggtttggagttgttgttgttgcagAGATTTCGTGTTGGATGTGGAGCGGGGAGCGGCAATCGACCAAGATGAGAATCAAGTATCTGGAGGCTGCCTTAAACCAGGACATTCAGTTCTTCGACAC
gattgat putative branch site (score: 4)
attttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgaattgaattgaattgactcactaattctttgtttgtgtttgtttggctttggattttgattgatgggtttggagttgttgttgttgcagAGATTTCGTGTTGGATGTGGAGCGGGGAGCGGCAATCGACCAAGATGAGAATCAAGTATCTGGAGGCTGCCTTAAACCAGGACATTCAGTTCTTCGACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG