Sequence
atgc intronic sequence ATGC exonic sequencegtatgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctcttttgccgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os07g37580.2 (Oryza sativa), 3'ss of exon 5
gtatgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctct-tttgccgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
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gtatgccgtgtattagcttgatgctaagctttt-----ttctctcttaaactacacgtctatacccccataacactgactgtcactctcagagcttgttctcccactatctatttctggggcactaaga--gaaaacgatttatgaactgcagGTCTGGTAGCTGATATCGATATTGAGTCAGAGAAGTACAGGTGGATGGGCAGTGCTCGTCTTGACTTCTAT
upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G06300.1 (Glycine max), 3'ss of exon 6
gta--tgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctcttttgccgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
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gtaattataaattactgtcaccatagtcgtgttttggaaacga-----gtgaatgtgaaaaagcatctaagttacttgtgtcagcatctggt-tctggccatgata----ttcgccg-----taacatatttgaaaattttaattttatttcagGTCTGGTTGCTGATATTGATATCGAGTCTGAAAAGTATAGGTGGATGGGAAGTGCTCGTATTGATTTTTAT
upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA15G07340.1 (Glycine max), 3'ss of exon 6
-------------------------------------gtatgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctcttttgccgcagtaaaatttaattgacaactgacaagc-ctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
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gtaattactctcaccatgtactagaaatgaagtggtggcagatgtgctaaaacatctaggctaactgttcg----caattttttctttctcttcttgatttatccagac-ttaggtgattcttagttctgaccatgcaattgacttgacatattatatgatatccattggaggtattat-tttatttcagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAGTACCGGTGGATGGGAAGTGCTCGTCTAGATTTTTAT
upper sequence: GRMZM2G057475_T03 (Zea mays), 3'ss of exon 6
lower sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 6
-----------gtatgcagcatataattt--ctatgctaact-atttgaaaacaacagctga---gaacac---agaccaccttcctcagagattgctccatcactttctc-------ttttgccgcagtaaaatttaatt--gacaact--gacaagcctga---aaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
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gtatgaccaaaatttccaccacttgtttatgccatactcttggaactgcaagtgactgttgaactggatttttaagacaagctttctaagaatatgcctctggatttactagaataagctttctagtggatttgtttgattttgatagctctactttgccttactgacagaattttagtattccagGTCTGGTGGCAGATATTGACATTGAGTCTGAAAAATATAGGTGGATGGGAAGTGCTCGTTTAGATTTCTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
aactgac putative branch site (score: 2)
taaaatttaattgaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcagcatataatttctatgctaactatttgaaaacaacagctgagaacacagaccaccttcctcagagattgctccatcactttctcttttgccgcagtaaaatttaattgacaactgacaagcctgaaaatgatatatgaactgcagGTCTGGTGGCTGATGTTGATATTGAATCGGAGAAGTATAGGTGGATGGGAAGTGCTCGCCTTGAATTTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA