Sequence
atgc intronic sequence ATGC exonic sequence...ggaaagtctataatgttgtattccctcctgagtcattcctattagtatttttaagttggttgccttttttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC
Basic information
species | Glycine max |
transcript | GLYMA19G36300.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36300.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G083580_T01 (Zea mays), 3'ss of exon 8
ggaaagtctataatgtt--gtattccctcctgagtcattcctattagtatttttaagt--tggt-tgcc--ttttttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC
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-------ccactgtctcaggcctgccattcactgttatacatgaaggttttttttaatgacgatatgttaacttattgctcatcaaaaatttttctctgaactgcagTCTCTCAATCCTCCAGTATTGATTTTTGTCCAAAGCAAAGAGAGGGCCAAAGAGCTTTACAAAGAACTGGCATTTGATGACATTAGAGTTGATGTAATTC
upper sequence: GLYMA19G36300.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM5G811567_T01 (Zea mays), 3'ss of exon 8
ggaaagtctataatgtt--gtattccctcctgagtcattcctattagtatttttaagt--tggt-tgcc--ttttttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC-
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-------ccactgtctcaggcctgccattcactgttatacatgaaggttttttttaatgacgatatgttaacttattgctcatcaaaaatttttctctgaactgcagTCTCTCAATCCTCCAGTATTGATTTTTGTCCAAAGCAAAGAGAGGGCCAAAGAGCTTTACAAAGAACTGGCATTTGATGACAT-AGAGTTGATGTAATTCA
upper sequence: GLYMA19G36300.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0040g02300.t01 (Vitis vinifera), 3'ss of exon 9
ggaaagtctataatgttgtattccctcctgag-tcattcctattagtatttttaagttggttgcctttt---------ttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC
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------tttat----ttacattttttaattagattgtccctattactaatttcaagtggagtatatttaatttattaattaattcctttgtgtgtcacactttttgctagAGTTTGAATCCACCGATTCTTCTCTTTGTCCAAAGCAAGGAACGTGCAAAGGAGCTCTACACGGAACTGGCATTTGATGACATTAGAGTTGATGTTATCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttaagttggttgccttttttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC
ttttgac putative branch site (score: 3)
tttttatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggaaagtctataatgttgtattccctcctgagtcattcctattagtatttttaagttggttgccttttttgacctttttatttactgcaacatcttgtagAGTCTTAATCCTCCAGTATTGGTTTTTCTCCAAAGCAAGGAGCGTGCCAAGGAGCTGTACAGTGAACTTGCATTTGACAACATTAGAGTTGATGTTATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT