Sequence
atgc intronic sequence ATGC exonic sequencegtatttgtctaattgcatactttaaaatttgcaacatatataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
Basic information
species | Glycine max |
transcript | GLYMA16G28890.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G28890.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os11g05700.1 (Oryza sativa), 3'ss of exon 6
--gtatttgtctaattgcatactttaaaatttgcaacatatataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
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gtaaatttattttcatgtatggttgga---ttacaagggaaaaaccatt--------ttggtgttctaaaaagttgttctgctat-tgattttcattcaa-cagATTAAGTACAGGCAAGATGCTCCTCTTGTACTGCATGGAATTACTTGCACATTTGAAGGTGGAGACAAGATTGGTATAGTTGGTCGGACAGGAAGTGGCA
upper sequence: GLYMA16G28890.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os06g06440.1 (Oryza sativa), 3'ss of exon 7
gtatttgtctaattgcatactttaaaatttgcaacatatataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
||| || || ||| | | || || || | ||| | |||| | || | | | || | | || | ||||||| | || |||| || | || |||||||| ||||| || ||||||||||||||||| || || ||||||||||| ||||| ||||||| ||||| |
--------gtaaatgtat--tttcatgtatggttggcgtacaaggtgaaaccattttagagtcctaacaagttt--ttatgctactgactttcattcaacagATTAAGTACAGGCAAGATGCTCCCCTTGTACTGCATGGAATTACTTGCACATTTGAAGGTGGACATAAGATTGGTATAGTTGGTCGGACAGGAAGTGGCA
upper sequence: GLYMA16G28890.1 (Glycine max), 3'ss of exon 15
lower sequence: AC234203.1_FGT004 (Zea mays), 3'ss of exon 7
gtatttgtctaattgcatactttaaaatttgcaacata---tataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
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gtaatcatatatatacaaacatttacatgtatgccttacaatggaacattttcatattctag-gttctagagaattaactcgactggt--tttgtgc---aacagATCAGATACAGGGAAGATGCTCCCCTTGTACTGCATGGAATCACATGCACTTTTGAAGGCGGAGATAAGATTGGTATAGTCGGCCGGACAGGAAGTGGAA
upper sequence: GLYMA16G28890.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G59140.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatttgtctaattgcatactttaaaatttgcaacatatataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
|| |||| | ||| | | | | | | | | | | | |||||| | | | | | |||||||||||| || ||| ||||| || || | || |||| ||||||||||||||||| ||||||||||| ||||||||| | || || |||||||
----------------------gtaagtttg--attaatacactttcactctctaatccatattatgagtgtttcttaatttattaatgttcatatatacagATAAGATACAGAAGAGAATCCCCACTGGTTCTAAAAGGAATCAGCTGCACATTTGAAGGAGGACACAAGATTGGAATTGTTGGCCGAACCGGTAGTGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
aaatgcataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttgtctaattgcatactttaaaatttgcaacatatataatattaaaaagcatgggagttcaaatgaaatgcataattttgtggtctataccaaaacagATAAGATATAGGCCTGAAGGGCCACTTGTACTCCATGGCATCACTTGCACATTTGAAGGAGGGCACAAGATTGGTATTGTTGGCAGGACAGGCAGTGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG