Sequence
atgc intronic sequence ATGC exonic sequence...ggactcgtttatatttctaacgctaacccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcaccccccctctaggcgactatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
-------------------------ggactcgt-ttatatttctaacgctaacccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcaccccccctctaggcgactatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
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gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcat--gaaaacctca--ttcttccttctcagGATATGGT--GGTGA-TGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC-------------
upper sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA13G23790.4 (Glycine max), 3'ss of exon 4
-----ggactcgtttatatttct--aacgctaacccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcacccccc----ctctaggcgac--------tatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
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tccctaagttctgttatgatcctttgttgttgttactattcctttttaagttgcaattactaattttgccatcctctttcctaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC-------------
upper sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G01200.1 (Glycine max), 3'ss of exon 4
ggactcgtttatatttctaac---gctaacccgacttgt---agttgtgt-ttatatttgtaaatttcagtttcgccctattcacccccc------ctctaggcgac--------tatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
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--gtttgttcatattcccatctaagttgttcagaggtggcaaagttttacatcatcattgctaattgttttcttttcctttccaaatttcttaaatctatagGCTATGGTGGTGATGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC-------------
upper sequence: GRMZM2G362021_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA19G01210.4 (Glycine max), 3'ss of exon 4
---------ggactcgtttatatttctaacgcta--acccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcaccccccctctaggcgac--------tatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
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ttctgttatgatcctttttttttggttgttgttactattcctttttaagttgcaattgctaatttttttcatcctctttccaaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAACCAGCTCCAAAGGATCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGTACCAC------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatttgtaaatttcagtttcgccctattcaccccccctctaggcgactatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
ttgtaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggactcgtttatatttctaacgctaacccgacttgtagttgtgtttatatttgtaaatttcagtttcgccctattcaccccccctctaggcgactatcagGTTCCCATAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGACCCCTCACATATCTGGGACTACAATTGATGCGCAT
- - - - - - - - - - - - - - - - - - - -tgtgttt