Sequence
atgc intronic sequence ATGC exonic sequencegtatgatttgcatcgtcccttactttgcttcttagtttctgagcttatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G51810.1 (Glycine max), 3'ss of exon 8
gtatgatttgcatcgtcccttactttgcttc-ttagtttctgagcttat-atgcttatcatgccattgtttgtcatatccatgtt-----aatttct----cagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
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--------------gttagtaaattcatttgatcagaagcacaaataattattgttaccatgacatatgttttcacaaataaactcgaagagtctttggtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
upper sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G17300.1 (Glycine max), 3'ss of exon 9
gtatgatttgcatcgtcccttactttgcttcttagtttctgagct---tatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
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gtaatcctagttgaacaagatattttgctttgaatagtatgaaatgtatataaacttagCTCTTGACTTTATAACACATTTCATCTTCTGTTCTAGGTTAGTGCTCTCCATAATGTTGAGGCCAAGAAGAGATTTGAGTTTTTGGAGGCTGTCACTGGA---------------------------------
upper sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G37780.1 (Glycine max), 3'ss of exon 8
gtatgatttgcatcgtcccttactttgcttcttagtttctgagct-tatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
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gtaatcttagttgaataagatattttgctttgaatagtatgaaatgtataaacacggctcttaactacagaacacatttcgtctactgttctagGTTAGTGCTCTTCATAATGTTGAGGCCAAGAAGAGATTTGATTTTTTGGAGGCTGTCACTGGAGTTATGGATGCTCATCTTCGGTATTATCGACAG
upper sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G28890.2 (Glycine max), 3'ss of exon 8
gtatgatttgcatcgtcccttactttgcttcttagtttctgagcttatatgcttatcatgccattgtttgt-catatccatgttaa-------tttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
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----------gttagtaaattaatttgatcagaagtacataaataattactgttaccatgcatatgttttcacaaataaactcgaagagtcttttgtccagGTTACTGCCTTGTCAAATGTTGAAGCAAAGAAGAGATTTGAATTTTTGGAAGCAGTCAGTGGGACCATGGATGCACATCTTCGTTACTTCAAACAG
upper sequence: GRMZM5G872204_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g00310.t01 (Vitis vinifera), 3'ss of exon 8
gtatgatttgcatcgtccct-tactttgcttcttagtttctgagcttatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
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gtaag-ttaataccatgaggatatatcaattcagataaaaagcaataatgtaacagttaggct-ttcaaaatttggcacacgtttccttc-cagGTCAGTGCTATCTCTAATGTCGAGGCAAAAAAGAGGTTTGAGTTTTTGGAGGCTGTCAGTGTAACAATGGCTGCACATCTTCGTTTCTTCAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgagcttatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
tgttaat putative branch site (score: 3)
tttctc CT-rich tract
atgttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatttgcatcgtcccttactttgcttcttagtttctgagcttatatgcttatcatgccattgtttgtcatatccatgttaatttctcagGTCACTTCACTTTCCCATGTCGAGGCAAAGAAGAGATTTGAATTTTTGGAGGCTGTTAGTGCGACAATGGATTCACATCTTCGTTATTTTAAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT