Sequence
atgc intronic sequence ATGC exonic sequence...ttctgaacgaaaaaaaaagtttgagaaatagaggcatcatttttctcagtgcccatgatcactgatgttcttataaagatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g03460.1 (Oryza sativa), 3'ss of exon 4
ttctgaacgaaaaaaaaagtttgagaaatagaggcatcat----ttttctcagtgcccatgatcactgatgttcttataaa-gatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG---------------
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----ccagtagtaaaatgggttgagaaacagaagtgttttgatttcttatcgacacccagggttgctaatgttctaacatttaacttttttaaatgtgctga-agATTAATAGGAGGATGGAGTTTGTGTTTGCAAGTCATACATTTGATGTTTGGGAGAGCTGGATGCTGGAGGGGTCCTTGTTGGAGGGTTGCAAACTTATCA
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G39090.1 (Glycine max), 3'ss of exon 5
ttctgaacgaaaaaaaaagtttgagaaatagaggcatcatttttct----cagtgccc-atgatcactgatgttcttataaagatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG---------------
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----caatgaaagttaaatatttagatatatgactaactctactatgttatattaccctgcaaacac-aaggcccttaatttggttataaactgtcattttgcagATCAATAGAAGAATGGAGTTTGTATTTGCTAGTCATAGTTTTGATGTTTGGGAGAACTGGACTCTAGAAGGTTCCTTACAGGAATGCAGACTGGTGAACT
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G47240.1 (Glycine max), 3'ss of exon 5
ttctgaacgaaaaaaaaagtttgagaaatagaggcatcatt----tttctcagtgc-ccatgatcactgatgttcttataaagatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG----------------
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-----aatgaaagctaaatatttagatatatggctaactctaccatgttatattacactgcaaaca-tgatgcccttaatttggttgtaaactgtcattttgcagaTCAATAGAAGAATGGAGTTTGTATTTGCTAGTCATAGTTTTGATGTTTGGGAGAACTGGACTCTAGAAGGTTCCTTACAGGAATGCAGACTGGTGAACTG
upper sequence: GRMZM2G476107_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT1G01510.1 (Arabidopsis thaliana), 3'ss of exon 5
ttctgaacgaaaaaaaaagtttgagaaatagag-gcatcatttttctcagtg-cccatgatcactgatgtt---cttataaagatttgttgcac-------tacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG---------------
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---------------gtagctcttacattagagagtgttacttccattggtaactcaatgttgctcttatggaatctaaaagtggttgtgtcatgggtgtgtgtgtgtgcagATCAATAGAAGAATGGAGTTTGTGTTTGCTAGCCATAGTTTTGACGTGTGGGAGAGTTGGAGTCTAGAAGGTTCTCTGGACGAATGTCGGCTTGTTAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagtgcccatgatcactgatgttcttataaagatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG
cactgat putative branch site (score: 3)
ttcttataaagattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgaacgaaaaaaaaagtttgagaaatagaggcatcatttttctcagtgcccatgatcactgatgttcttataaagatttgttgcactacattgacagATTAATAGGAAGATGGAGTTTGTGTTTGCAAGCCATTCTTTTGATGTTTGGGAGAGCTGGATGCTGGACGGTTCCTTGCTGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG