Sequence
atgc intronic sequence ATGC exonic sequence...ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 10
--------------------------ctaatgatgctttattttgtggaagttgcatactatgagta-gttagact--tctatggttaatatt-----gaatagagtttcatcaaatt--atgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
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gtaagttccattacttctatgcttttgttgtgatgctgttacaattgcaatttacgcttgttacctatgctggttttatcagtggcatatattttcctgcaagatatgatagcgagtttaatgttttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGATA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 10
--------------------------ctaatgatgctttattttgtggaagttgcatactatgagta-gttagact--tctatggttaatatt-----gaatagagtttcatcaaatt--atgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
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gtaagttccattacttctatgcttttgttgtgatgctgttacaatcgcaatttacgcttgttacctatgctggttttatcagtggcatatattttcctgcaagatatgatagcgagtttaatgctttatattgcagGTTGTGCAAAGGTTTCAAGAATTGTTTGCACAAACAAAATACAAGGAAGCAGCTGAGTTGGCTGCAGAATCTCCTCAAGGTCTTCTCCGAACTCCTGAGA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 10
--ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
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tgattgctatgtttagcttcttaagaaatgctctctctt-gttattgtatttttggttcttttattcatgaatatgatgtccatatttgt-tgacattacagGTAGTGGAACGTTTTCATGAACTGTTTGCCCAAACAAAATATAAGGAAGCTGCAGAGCTTGCAGCTGAATCTCCACAAGGAATCCTTCGAACTCCTGACA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 10
-ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
| || | ||| ||| | | | | | || | || | | || |||| | | | ||| | | | | | ||||| || || | ||||| ||||||||||| |||||||| || || ||||||||||| || ||||| ||||||||||| || || | | || ||||| |
gtgtgtaatagcctcatttaaaatggtttagtttttttattgctttgtttttttttgtgtgtattttactcattaacat-gcctccttgttgacattacagGTGGTAGAACGTTTCCATGAACTGTTTGCCCAAACAAAGTATAAAGAAGCAGCTGAACTTGCTGCTGAGTCTCCGCAAGGAATCCTTCGCACACCTGATA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 10
-ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
| || | ||| ||| | | | | | | | | | | ||||| | | | | | | | | | | ||||| || || | ||||| ||||||||||| ||||| || || || |||||||||||||| ||||| |||||||| || || || | | || ||||| |
gtgtgtaatagcctcatttaaaatggtttcgtttttatgattgctttgttgttgttttgtgtattgtagccattaacgt-gcctccttgttgacattacagGTGGTAGAACGTTTCCATGAACTGTTTGCCCAAACCAAGTATAAAGAAGCAGCTGAGCTTGCTGCTGAGTCTCCACAAGGAATCCTTCGCACACCTGATA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 10
---ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaa-attatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
||| || | ||||| | | | | ||| | | || || || | ||||| || | |||| | | || | |||||||| || ||||||| ||||||||||| || ||||| || |||||||| || ||||| |||||||| ||||| ||||| ||| || | |||||||| |
tttacaattttggtccattttctaggaa--ggcctctagaattgcagtgagtttcattgc--atattaaaaacctgctcatttgtgatcttggttatttctcagGTTGTCCAGCGGTTCCAAGAACTGTTTGCTCAGACAAAGTATAAGGAAGCTGCGGAGCTTGCTGCAGAATCTCCACAGGGACTCCTGCGTACTCCTGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
ggttaat putative branch site (score: 4)
ttaatattgaataga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaatgatgctttattttgtggaagttgcatactatgagtagttagacttctatggttaatattgaatagagtttcatcaaattatgaattgtactgcagGTTGTGCAAAGGTTCCAGGAACTGTTTGCGCAAACAAAATACAAGGAAGCAGCTGAGCTGGCTGCAGAGTCTCCGCAGGGCCTCTTGAGGACTCCTGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG