Sequence
atgc intronic sequence ATGC exonic sequencegtaacccctaaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaaagcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 2
----------------gtaacccctaaactaatgtacatgaaattgggt-tcaactatgcatcgttttgacttttaaagc-actttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
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gtatgggtttcactgatctgcatgtgaactg-taaacctgaattttgctctttatttttctatgatttgatcttaacatccgttgtgtaaaattttctttcagATGACAGGGAAAGATAAGGACTACAGATATATGGCAACTTCAGATTTGCTTAGCGAATTGAACAAAGAGGGCTTCAAAGCTGACCAAGACATCGAGCCAA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g07340.1 (Oryza sativa), 3'ss of exon 2
----------------gtaacccctaaactaatgtacatgaaattgggt--tcaactatgcatcgttttgacttttaaagcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA-
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gtatgggtttcactgatctgcatgtgaactg-tatacctgaattttgctctttatttatctat-gatttgattttaacatcgtcgtgtaaaatttgctttcagATGACAGGGAAAGATAAGGACTACAGATATATGGCAACTTCAAATTTGCTTAGCGA-TTGAACAAAGAGGGCTTCAAAGCTGACCAAGACATTGAGCCAAA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 2
gtaacccctaaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaaagcactttgttaaatgcct--gcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
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---------gtatgtatacacatgttctgatgttca--tatgcattgtggctgttcatgatgaatggttttcgatttcttcgcgcagATGACTGGGAAGGACAAAGATTACAGATATATGGCCACATCTGATTTGCTCAATGAGTTGAGCAAAGCAACGTTTAAGGCCGATGCTGATCTGGAGGTCA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 1
gtaacccctaaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaaagcactttgttaaatgcct--gcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
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---gtatgcatacacatgctc-tgatgttcatgttga-tatgcattgtggctgttcatgatgaatggttttcgatttcttggcgcagATGACTGGGAAGGACAAAGATTACAGATATATGGCCACATCTGATTTGCTGAATGAGTTGAGCAAAACAACGTTTAAGGCCGATGCTGATTTGGAGGTCA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaacccc-taaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaa--agcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
|| | | | || | || || | || | | | | | || ||| | || | || | | |||||||| || ||||||||||| |||||||| |||||||| || ||| |||||| ||| |||||||| || ||| ||| || | ||| | |
gtcttttcatcatctgtttctaattaagcttaattttgtttttgagtatagtcaccttttctcattgctgtatttactatagTTTCAGATGACGGGTAAAGATAAAGATTACAGATACATGGCAACCTCTGATTTGCTTAATGAGTTGAATAAGGATTCCTTTAAAATCGACCTGGACTTGG------
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: AT2G02560.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaacccc-taaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaa--agcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
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gtcttttcatcatctgtttctaattaagcttaattttgtttttgagtatagtcaccttttctcattgctgtatttactatagtttcagATGACGGGTAAAGATAAAGATTACAGATACATGGCAACCTCTGATTTGCTTAATGAGTTGAATAAGGATTCCTTTAAAATCGACCTGGACTTGGAGGTGA
upper sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 2
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 3
-----------------------------------------------------------------gtaaccc-ctaaactaatgtacatgaaattgggttcaactatgcatcgttttgactt-----ttaaagcactttg------ttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
||| || | || | || || | || | ||||| | ||| | |||| || | | |||||||| || |||||||||||||| |||||||||||||| || ||| | | | ||| || || |||||| | || | ||||||| || | ||| ||
gtatgttttttatttttgtatttttttgtgggcttattttttcaaaagaagatttttaattttttttaattttctgctatcttggcagtttccttttctttgatggtgaagagttttaggctggtaattatcgtcttttggcttgtttgggtttgtttgcagATGACGGGTAAAGATAAAGACTATAGATATATGGCAACTTCTGATTTATTAAATGAGTTAAACAAAGAAGGATTTAGAGCTGATGCTGATTTGGAGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttcaactatgcatcgttttgacttttaaagcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
ttttgac putative branch site (score: 3)
ttttgacttttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacccctaaactaatgtacatgaaattgggttcaactatgcatcgttttgacttttaaagcactttgttaaatgcctgcacagATGACAGGGAAAGATAAAGACTACAGATATATGGCAACATCAGATCTGCTTAGTGAATTGAATAAAGAAAGCTTCAAAGCTGATCAAGACCTTGAGCCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT