Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtttgtaatgctagttactgacctttactcatgatctattctaacaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g43630.1 (Oryza sativa), 3'ss of exon 8
gtaagtgtttgtaatgctagtt--actgacctttactcatga--------------tctattctaacag-----gattctgattta-----cacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
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gtaagtttttttgatagtattttaactgttcatcattcactaaggatgaagtacattcaactctgggtgtctttgttcctgagtaaaaacttaaatgtagGTCTTGGTGAAAGATCTTTTGAGGAAATATCCTCAATGGAGCCATGATTGTATAGCAGTTGTTGGAAACATCAGTAGCAAAAATATTCAGGAGCCAAAAG
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G08480.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------------gtaagtgtttgtaatgctagttactgacct---ttactcatgatctatt---ctaaca-ggattctga---tttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
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gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgcaaacatgtgttgaaagtaaggcattttgatttgacttagctatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA06G08590.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------------gtaagtgtttgtaatgctagttactgacct---ttactcatgatctatt---ctaaca-ggattctga---tttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
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gtaaacatgacaagtgcctgctagctaccctgaaatttgtgcttaagagtagtattgctttgttttatattatatgcaaacatgtgttgaaagtaaggcattttgatttgacttagatatggtatggtagactaatgcgaagtttgaaagttcatttgttcagGTGCTTGTGAAAGATCTGCTAAGAAAATATCCACAATGGAGTCAGGATTGTATTGCTGTTGTTGGAAATATCAGTAGTAAAAATGTCCAAGAACCCAAGG
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: AT5G11490.2 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------gtaagtgtttgtaatgctagttactgacctttactcatgatctattctaacaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
| | | | || || ||| | ||||| | | | || |||| || | | | |||| | ||||| || ||||| || || ||||| |||||||||||||| || || |||||||||| ||||||||||||||| |||||||| || ||||
gtaaactatcatttgaactattcacggagatgattggccatcacattgatactta-tattgtttacattttcataacaattccacttgtctggttc-ctcttctagGTTCTTGTAAAGGACCTTCTAAGGAAGTATCCACAATGGAGCCATGACTGCATTTCTGTTGTTGGGGGTATCAGCAGCAAAAATATCCAGGAACCGAAAG
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------------------------------------------gtaagtgtttgtaatgctagttactgacct--ttactcatgatctattcta-acaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
| | |||| || ||| | | | | ||| | | ||| | | || | |||| |||| | ||||||||||| || || |||||||| |||||||| |||||||| || || |||||||| ||||||||||||||||| | ||||||||||| |
gtgaatttttacagctgtgcctagatgcttggatttttattgtgattgaatttgaacattgaaccaaactccaaaaaaatttatgctcttcatgcatagaagtaacatgagcatatgatttaactgttattaatcagattgatacaagtctggagttctctcatgtagGTGCTTGTAAAAGATCTGCTAAGGAAATATCCACAATGGAGTCATGATTGCATTGCAGTTGTTGGGAATATCAGCAGCAAAAATGTTCAGGAGCCCAAGG
upper sequence: AC198725.4_FGT007 (Zea mays), 3'ss of exon 8
lower sequence: PP1S131_189V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------gtaagtgtttgtaatgctagttac-tgacctttactcatgatctattctaacaggattctgattt-acacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
| ||| ||| | | |||| | | ||| || ||| |||| || | |||||| ||||||||||| ||||| | |||||||| || |||||||| |||||||| || || || || | | ||||||||| | || || ||||
tgccggggtggttttttttcctgccacccatagttgccatgagcttcatgcgaccgcaagaaaagat-taccataattaatttctcatcggatttgagcagGTATTGGTAAAAGACCTTCTTCGCAAATATCCCCAGTGGAGCCACGATTGTATTGCAGTGGTCGGTAGCGTGAGCAGCAAAGCTGTGACTGAACCAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttactgacctttactcatgatctattctaacaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
tattctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtttgtaatgctagttactgacctttactcatgatctattctaacaggattctgatttacacatgcagGTCTTGGTAAAAGATCTTCTCAGAAAATATCCTCAATGGAGCCATGATTGTATAGCTGTTGTTGGAAATATCAGCAGCAAAAACATCCAGGAGCCCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT