Sequence
atgc intronic sequence ATGC exonic sequencegtgagcatgctacttgatttatggtcttatggcatcacataaaaggtgtgcttttaattttttatttggcattcaaccacattatcttataataccgagccactgacttaacttgtatttatatttccatttgtttttcagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G828466_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g60700.2 (Oryza sativa), 3'ss of exon 3
gtgagcatgctacttgatttatggtcttatggcatcacataaaaggtgtgcttttaattttttatttggcattcaaccacattatcttataatacc-gagccactgacttaa-cttgtatttatatttccatttgtttttcagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA
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--gttactgcttctaaactttttctttt-tgacattac-caataagtgaatattta---ttttacctagttatatagtacattggttgatggtttttgaccttgtggtttaaactcttattcatatgtt-attttttttacagGCCATGTACAATGACTTCTCAACCTCAAACATCCAAATTGACAAAGATTTCACTGCAAAGCTATCAGGATATGGATGTGTTGGATTCAATACCGAGGAGG
upper sequence: GRMZM5G828466_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G41160.1 (Glycine max), 3'ss of exon 3
gtgagcatgctacttgatttatggtcttatggcatcacataaaaggtgtgcttttaattttttatttggc-attcaaccacattatc-ttataataccgagccactgacttaacttgtatttatatttccatttgttttt-cagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA
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-------------------------------------------atttgtttttcgtagtatggagtgaatgatttcaagatgttatgattattaggtt-aactacacatgttatctttgctgacatccttatttttgtctgcagGCAATGTATAATGAGTTCTCAACAGCCAACATACAGATTGACAAAGATTTCAGTGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAGGAAG
upper sequence: GRMZM5G828466_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G44630.1 (Glycine max), 3'ss of exon 2
gtgagcatgctacttgatttatggtct-tatggcatcacataaaaggtgtgcttttaattttttatttggcattcaaccacattatcttataataccgagccactgacttaacttgtatttatatttccatttgtttttcagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA-
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-------tacaactataataacactttgttttgtttttcatagtatg-gagcgaatgatttcaagtatgttat--gattat-taggttaattataca----ctttatctttgctgacatccttctttctgcttgt-----aggCTATGTATAATGAGTTCTCAACAGCCAACATACAGATTGACAAAGATTTCAGCGCAAAGCTTTCAGGATATGGTTGTGTTGGACATATTCCCGAAGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttataataccgagccactgacttaacttgtatttatatttccatttgtttttcagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA
tttccatttgtttttc CT-rich tract
tatttatatttccatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcatgctacttgatttatggtcttatggcatcacataaaaggtgtgcttttaattttttatttggcattcaaccacattatcttataataccgagccactgacttaacttgtatttatatttccatttgtttttcagGCCACGTACAACGAGTTCTCAACTTTGAACATCCAAATAGATAAAGGTTTCACTGCTAAGCTTTCAGGATATGGTTGTGTTGGCTTCAATACCGAGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA