Sequence
atgc intronic sequence ATGC exonic sequencegtacgtcactattatgctgacagcgattccatacagattaattagctccagtttgtgtaattaaaacttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 8
gtacgtcactattatgctgacagcgattccatacagattaattagctccagtttgtgtaattaaaac----ttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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gtacgtaattgatgctcttacagtaat-------agataaat-agcatctgtttacttgatcaaaatatgttttcgatatttt-ctccagTGAGAGCGCAAATGAATACACAGATGATGAGGATGCAAGCTGGAAAGTCCGGAGGGCTTCAGCAAAGTGCTTATCTGCAATTATAGTATCTCGTCCTGAA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 6
-----------gtacgtcactattatgctgacagcgattccatacagattaattagctccagtttgtgtaattaaaa----cttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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aggatgaggaagatgatgagtacttaattgatgctcttacagtaatagataaatgttatctgtttacttgatcaaaatatgttttcgatatttt-ctccagTGAGAGCGCAAATGAATACACAGATGATGAGGATGCAAGCTGGAAAGTCCGGAGGGCTTCAGCAAAGTGCTTATATGCAATTATAGTATCTCGTCCTGAA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 7
gtacgtcactattatgctgacagcgattccatacagattaattagctcca----gtttgtgtaattaaaacttttaa-----cattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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gtatgt-gctttttggttcacttagctgcagtatgggattaatgttttcatgatattcttcttgttaatcttcccaaatgtgctattttttgcagTGACAGTGCAAATGAATATACAGATGATGAAGATGTCAGCTGGAAAGTTCGGAGAGCAGCAGCTAAATGCTTAGCAGCATTGATTGTTTCTCGTCCTGAG
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 8
gtacgtcactattatgctgacagcgattccatacagattaattagctccagtttgtgtaattaaa-acttttaacattttgt----tccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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gtatgtc-ctttttggttcccttagctgcagtatggattaattctttcatgatattcttgttaatcatctcaaatgtgctgtattttgcagTGAGAGTGCAAATGAATATACAGATGATGAAGATGTAAGCTGGAAAGTTCGGAGAGCAGCAGCTAAATGTTTAGCAGCATTGATTGTTTCTCGTCCTGAG
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 8
gtacgtcactattatgctgacagcgattccatacagattaatta-gctccagt-ttgtgtaattaaaacttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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gtaagtt-ctgatttattcattggaacagtagcctagctccttacggtgcaccattatctcactgaaataagtctttctttctcacagCGAGAGTGCAAATGAGTACACAGATGATGAAGATGCCAGCTGGAAAGTTAGGAGAGCAGCGGCCAAATGCCTAGCAGGATTAATCGTTTCGCGTTCTGAG
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 8
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 9
----gtacgtcacta--ttatgc-tgacagcgattccatacagattaatta-----gctccagtttgtgtaattaaaac----ttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
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gtatgttgttcactggtttatgtatatttgagctatcgtgtaaataatttatgcatgcttgaattgttactaatatcacagtactgtatcttgtatttgtagTGAGAGTGCAACTGAATATACAGATGATGAGGATGTCAGCTGGAAAGTTCGAAGAGCAGCAGCTAAATGCTTAGCAGCTTTGATTGTTTCTCGACCTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacagattaattagctccagtttgtgtaattaaaacttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
ttttaac putative branch site (score: 2)
ttttgttcc CT-rich tract
tttgtgtaattaaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtcactattatgctgacagcgattccatacagattaattagctccagtttgtgtaattaaaacttttaacattttgttccagTGAGAGTGCAAATGAGTACACAGATGATGAGGATGCAAGCTGGAAAGTCCGTAGGGCATCAGCAAAGTGCCTATCTGCAATTATAGTGTCTCGTCCTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG