Sequence
atgc intronic sequence ATGC exonic sequencegttagtctcttatttaaattcgttctgatatttgttgctaacatactgagagctattttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
Basic information
species | Glycine max |
transcript | GLYMA14G24900.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g62800.1 (Oryza sativa), 3'ss of exon 2
--------gttagtctcttatttaaattcgttctgatatttgttgctaacatactg-agagctattt-tgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
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gtatgctgattgtacttttatctgatgaaaattttat-catgttgctgactctcagtagcaccacctgtctctctgttcatccagATGGTACCAGATATTGCATTTGGCTCTCACACTAGAGTTGCCCTGGATGTTGGCTGTGGAGTAGCAAGTTTTGGTGCATACTTACTTTCACGTGATGTGT
upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 2
-------gttagtctcttatttaaattcgttctgatatttgttgctaacatactgagagctatt--ttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
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gttcgatgtcaaa-tattcttcaaaactgcttggaatttaatccttactctgactagagcaacctgttccctctgttcgtccagATGGTACCAAATGTTGCATTTGGATCTCATACTAGAGTTGTCTTGGATGTTGGCTGTGGAGTAGCAAGTTTTGGTGCATATTTACTTTCACGTGATGTCC
upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------gttagtctcttatttaaattcgttctgatatttgttgctaacatactgagagctattttgaaattgaa-tgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
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gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
upper sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
gttagtctcttatttaaattcgttctgatatttgttgc-----taacatactgagagctat-tttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
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gttgaccatttctacaattctgacttggtattgtttgtatttacattgtattagtccccatcttttgacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgttctgatatttgttgctaacatactgagagctattttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
tgctaac putative branch site (score: 1)
tattttgaaattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtctcttatttaaattcgttctgatatttgttgctaacatactgagagctattttgaaattgaatgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG