Sequence
atgc intronic sequence ATGC exonic sequencegtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA
Basic information
species | Glycine max |
transcript | GLYMA06G17300.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os08g42530.1 (Oryza sativa), 3'ss of exon 8
----gtaatcctagttgaacaagatattttgctttgaatagt-atgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA---------------------------------
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gtatgtgaaac-agttgatcagactttgttcttgtattttcttactgtgtgccttttttcttatcatatcatcatttgccatacctgcactatt-ttttagGTCACTTCAATTTCCCATATTGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTTCAACTATGGATTCTCATCTTCGATATTTTAAACAA
upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g33600.1 (Oryza sativa), 3'ss of exon 8
gtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA---------------------------------
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--------gtacatgcactgtttccctgtataactgttctgatttctgtagttgtatgtaccgtggctttgt----cttatctatttaattttcagGTGACTGCACTTTCAAATATCGAGGCCAAGAAAAGATTTGAATTTTTAGAGGCTGTCAGTGGGACAATGGATGCACATCTGCGCTATTTCAAACAA
upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
gtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA---------------------------------
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gtatgatttgcatcgtcccttactttgcttcttagtttctgagct---tatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
upper sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv17s0000g00310.t01 (Vitis vinifera), 3'ss of exon 8
gtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataa-acttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA---------------------------------
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gtaagttaataccatgaggatatatcaattcagataaaaagcaata-atgtaacagttaggctttcaaaatttggcaca---cgtttcct--tccagGTCAGTGCTATCTCTAATGTCGAGGCAAAAAAGAGGTTTGAGTTTTTGGAGGCTGTCAGTGTAACAATGGCTGCACATCTTCGTTTCTTCAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA
aatagtatgaaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG