Sequence
atgc intronic sequence ATGC exonic sequence...gcatagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G386125_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g49530.1 (Oryza sativa), 3'ss of exon 4
gcatagggagtatcttttagggactc-caatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaact----aacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
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----aatctccaatgaaaaaggacttgttctggccaaagtcgaatatttactggatgttg-gaatgtttctttcttaattgacttatatccgtgccttgcaatagGTCTATCGGTGAATGGAGATAGTCAAGGCTTAGAGCGACTCCTTGGAGCCCTTTCTGCACACATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
upper sequence: GRMZM2G386125_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G32900.1 (Glycine max), 3'ss of exon 4
gcatagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaac---taacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
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ccatattcaa-actttttctgcttaccaaaacttaaggatata-atgatgaacattggaaaattattttcagat-atatgattttcacacaattattttacagGCTTGTCCATAGATGGTGATTTACAAGGAGTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCGATAGGAT
upper sequence: GRMZM2G386125_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA16G21560.1 (Glycine max), 3'ss of exon 4
----gcatagg-gagtatcttttagggactccaatagaagaa--ggcttat-atcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
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accatcatattcgaactttttctgctcaccaaaatttaaggatagaatgatgaacattggaaaattattttcagatataattcacacaa---ttatt-----ttacagGTTTGTCGATTGATGGTGATTTACAAGGAGTTGAGCGTCTCTACGGTGCACTTTCTGCTCATATGTGGCCTGGAATGGTATTGAAATCTGGCAATAGGAT
upper sequence: GRMZM2G386125_T01 (Zea mays), 3'ss of exon 8
lower sequence: AT5G65960.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------------------------gcatagggagtatcttttagggactccaatagaagaaggcttatatcatatagg-----aat---tgtggttgtttctatcttatt--tgatgttta----ttcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
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gtaagttctatctccttccttctgattatatattgactgcaatatgcccaatgtaatctggttactccttgtatagcttctactgaacttgtgaatgaaaagtgagtgaaaatggatgagcagagaatacgcgtattcgtctctctagcattaatgaggctcacgggttggtccttgtagGTTTATCAGTCGATGGGGATTCTCAAGGGGTTGAACGTCTATTTGGTGCTCTTTCGGCTCATATGTGGCCTGGGATGATTCTGAAATCTGGTGATAGGAT
upper sequence: GRMZM2G386125_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv07s0031g02260.t01 (Vitis vinifera), 3'ss of exon 4
gcatagggagtat-cttttagggactccaa---tagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
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ccttcaacactattctcccacaaagtttaggtcttggaaagagttccatttttcttcctttttcggtcatccat-ttatataaactggctgttca---tgacagGTTTGTCAGTTAATGGTGATTCACAAGGAGTTGATAGAATCCTGGGTGCACTTTCTGCTCATATGTGGCCTGGAATGACCCTGAAATCTGGTGATAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
atttgat putative branch site (score: 5)
ttatttgatgtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatagggagtatcttttagggactccaatagaagaaggcttatatcatataggaattgtggttgtttctatcttatttgatgtttattcaaactaacagTTAGATCAGTGGATGGTGATAGCCAAGGCTTAGAGCGACTCTTTGGAGCTCTTTCTGCACATATGTGGCCTGGAATGATTCTGAAATCTGGAAACAGAAT
- - - - - - - - - - - - - - - agaagaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggttg