Sequence
atgc intronic sequence ATGC exonic sequencegtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g22840.1 (Oryza sativa), 3'ss of exon 1
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaat-tcaaactgcccatacattacttgttcaatgga-ttctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA
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--------------------------------------------------------------------------------------------tgatatggagctaggaagacaacatatctccagaggagttgcatgagtataaagaccttgtttcacgaacggcatctgttgttgtgttcttgtgtaccagGTACCAAGATGAAGGTCAAGATTCTTCAGTGGCATGGGGTGGCTTCTTGGACATGGAACGCCCAGGATGAAACATGCGGCATATGCAGGATGGCATTTGA
upper sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g19059.1 (Oryza sativa), 3'ss of exon 1
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgccc-atacattacttgttcaatggattctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA
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--------------------------------------------------------------------------------atggcagcttgctttgcaaaattttcagaagcgcaactgaaccctcgcgcctgatatctaaatagctgc--tcacgaatccacctccc---------ttattgtgtaccagGTACCAAGATGAAGGTCAAGATTCTTCAGTGGCATTCGGTGGCTTCTTGGACATGGGACGCCCAGGATGAAACCTGTGGTATATGCAGGATGGCATTCGA
upper sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 1
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA----------------------------
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---------------------------------------------------------------------------------------------------------------aatttttattctgaattttcagcctccttaattctttatctattcatttgtaactaaaccaagaacatcctaatttttggttcccttttgtgaaata-------tagATGGCATGCTATTGCTTCTTGGACTTGGGATGCACAGGACGAAACGTGTGGGATTTGTAGGATGGCCTTTGATGGATGTTGTCCTGACTGTAAACTTCCT
upper sequence: GRMZM2G162356_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctg-catatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA----------------------------
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----------------------------------------------------------------------------------------------aaaaaaacaga--gtaggttcctcgtccctttagctttaacacatgagctcttacaatg--cggagtttctattgtt-gtaactgattgtttctc---------cctggaa-----------tagATGGCATGCAGTTGCTTCATGGACATGGGATGCTCAAGACGAAACATGTGGGATATGTCGGATGGCTTTTGATGGTTGTTGTCCTGATTGCAAACTTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA
ttgtttatatattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagtcactctgcagtaatatgttaaagcccaaatatctcattctcttcatcagttgattgaggatttcttttctgcgtagtggactactaattcaaactgcccatacattacttgttcaatggattctgcatatgacaagatgcagtgaataaaacgtctcttgtttatatattgttgcattccagGTAGCACTATGAAGGTCAAGATTCTTCAGTGGCATGCAGTGGCTTCTTGGACGTGGGATGCACAGGATGAGACATGTGGCATATGCAGGATGGCTTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG