Sequence
atgc intronic sequence ATGC exonic sequence...ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccatgtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 2
ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccatgt-gttaactgaa-ctactgtttatcttga--gaaaaaaatg-cagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
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-aagttgtttgagtgacctgt----tcagcatacatgtcttaattgaattatattcattattattacccgtttctaatgttctgctggatggaacaaaatggcagGGATACCTATAATGACCAGAGCCCAGAGAAGCCACCCTTTAGATCCATTATCTGCTGCTGAAATTGCAGTGGCTATAGCAACTGTAAGAGCTGCTGGAAA
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 1
----ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccatgtgttaactgaactactgtttatcttgagaaa--aaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
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caattttttatttgcaagttcttgaatgcaggctttgcttg---ttttcatgttttttaatattagctaactgtgtttctatttttgttgtaatgttgcatagGAGTCGTTGCTGCAATGCCAAGGGCACAGTCAAGCCACCCTTTGGATCCTTTATCTGCTGCTGAAATCTCTGTGGCTGTGGCAACTGTGCGGGCTGCTGG---
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 1
---ttaccattttcaacagcctataacctagatagacacatacta-tttgaaatgtgtaccatgtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
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ggttgactggcctttccctttctgcactgttgcagatattgaatagtttgtgctcttttgcat-tgttga-tgaattggttttgttgctatgctttt--tgcagGGATCCAGATCATGACAAGGGCTCAAACCTGCCATCCGTTGGACCCATTATCTGCAACTGAAATCTCAGTGGCTGTGGCAACTGTCAGAGCTGCTGGAGC
upper sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 1
ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccat--gtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
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-ttcattgttaaattgctactactctaaccacttaagtgtt-tataggtcgaatggcatcaatgtcatatggcttatttattttgtttctttgcttgtgtagGGATTCCAATCATGTTGAGAGCTCAGACCAGCCACCCTTTGGACCCTTTATCCGCTGCTGAAATCTCAGTGGCAGTGGCAACTGTCAGAGCAGCTGGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatgtgtaccatgtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
tgttaac putative branch site (score: 2)
agaaaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaccattttcaacagcctataacctagatagacacatactatttgaaatgtgtaccatgtgttaactgaactactgtttatcttgagaaaaaaatgcagGGATACCAATAATGACAAGAGCCCAGAGGTGTCACCCTTTGGACCCATTATCTGCTGCTGAAATTGCAGTTGCTGTAGCAACTGTAAGAGTTGCTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG