Sequence
atgc intronic sequence ATGC exonic sequence...taatttgtaaagaaaagttgagttgtttgttgctttactatttctccccctccatatttttatttatttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
Basic information
species | Glycine max |
transcript | GLYMA13G17510.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g34950.1 (Oryza sativa), 3'ss of exon 4
taatttgtaaagaaaagttgagttgtttgttgctttactatttctcccc----ctccatatttttattta--tttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
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---cgcttcacgatcaac---gttaatacttactctagtactttacgaaagaattgaataataaaattgaagtcaatttcatgtgctaactattcctaatctgtagATATTGCTCAAAGGAGCTAATGGCGATGAGCTGAAAAAAGTGAAGCATGTTGTGCAATATGGAGTCTTTGCAGCCTATCACTTGGCTCTGGAAACATCTT
upper sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G153722_T01 (Zea mays), 3'ss of exon 4
taatttgtaaa--gaaaagttgagttgtttgttgctttactatttctccccctccatatttttatttatttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
||||| ||| || | | | | | || || | | | | | | || | | | || | | || |||||||||| || ||||| ||||| |||||| | || |||||||| ||||| | ||||||||| | ||||||||||| ||| ||||||| || ||||| |
--gtttgttccttgaatgctttattaggccactttggcatcatctcatgtaaataaatgatctgcattatggtcatatatctaacttcctctgatgctgtagATCTTGCTTAAAGGTGCTAATGGTGATGAGCTAAAAAAGGTGAAGCATGTTTTGCAATATGGAGTATTTGCAGCCTACCATTTGGCACTTGAAACATCAT
upper sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 5
----------taatttgtaaagaaaagttgagttgtttgttgctttactatttctcc---ccctccatatttt-tatttattta----------ttatgtgtatttttttgctttactttga-agATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
|| | | ||| || || || | | ||| || || | | | |||||| | | | | | | ||| || | | || | |||| |||| ||||| ||||| || ||| |||||| | |||||||||||||||||||| || |||||| | |||||||| ||||| |||| || |||||||| |
gtaagttccacaacattttaaggtgttttaagacattagatccttgacctgttattatgactatgcatattgtatgtctgatcaggaaataatcttaagtatggtgcttgatctgtctttctcagATATTGCTCAAGGGGGCACATGAAGATGAGCTAAAGAAGGTGAAACATGTGATTCAGTATGGAGTTTTTGCAGCATATCACTTGGCTCTTGAGACATCCT
upper sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 4
----taatttgtaaagaaaagttgagttgtttgttgctttactatttctccccctccatatttttatttatttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
| || | | || | || ||| ||| ||| | | | | ||| | | || | | | || | | | || |||| ||||| |||||||| |||||||||||||||||||| ||||||||||||||||| |||||| | || ||||| || || | || || ||||||||||
tcttcaggttattctggaatgcc----tgcatgtgatcctacatttttgacactttaacttttagaaagaattgatgctcatctattgcttttctttgtttcagATTTTGCTCAAGGGTGCTAATGGGGATGAGTTGAAGAAAGTGAAACATGTGATCCAGTATGGAGTTTTCGCAGCTTACCACTTAGCTCTTGAGACATCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccccctccatatttttatttatttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
tttttttgctttactt CT-rich tract
atatttttatttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatttgtaaagaaaagttgagttgtttgttgctttactatttctccccctccatatttttatttatttattatgtgtatttttttgctttactttgaagATCTTGCTGAAGGGTGCCAATGGGGATGAGTTGAAGAAGGTGAAACATGTGATCCAATATGGAATCTTTGCAGCCTATCATCTGGCACTGGAGACATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - -aagaaaa
- - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgt