Sequence
atgc intronic sequence ATGC exonic sequence...aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------------------------------------------------------------------------aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaata-------tagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA----------------------------
upper sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
-aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaattt--ttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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aaaaaaacagagtaggttcctcgtccctttag--ctttaacacatgagctcttacaatgcggagtttctattgttgtaactgattgtttctccctgga-atagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT
upper sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------------aatttttattctgaa-----ttttcagcctccttaattctttatcta-------------ttcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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gtttttatatctggtactcaataattatatctttaactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcatttttta-tatagtaagaa-gccataattgttg--tactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT
upper sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0060g00290.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------aatttttattctgaa-----ttttcagcctccttaattctttatcta-------------ttcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
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gtttttatatctggtactcaataattatatctttgactagatttccttttttctatgaagaaaaatactcacaaccttcttggttgttgacctgcatatttagatgtttcatttttta-tatagtaagaa-gccataattgttg--tactctgtaaaaattgtagGTGGCATGCTGTCGCATCATGGACATGGGATGCCCAAGATGAAACCTGTGGGATTTGTAGGATGGCATTTGATGGTTGTTGTCCTGATTGTAAACTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
atcctaatt putative branch site
ttcccttttgt putative PPT
ttttgtgaaatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaatatagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA