Sequence
atgc intronic sequence ATGC exonic sequencegtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtttagcatgaaaatattttttgtgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
Basic information
species | Glycine max |
transcript | GLYMA03G01870.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g48140.1 (Oryza sativa), 3'ss of exon 2
---gtaggatctattttcctgttt-ccttttgagaccttattactagaatttcttgtttagcatgaaaatattttttgtgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
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gtaataagctaaatcttcacatgaatcaatttatgttttacttttaaagaaa-tggtatggtattaagatctttcct---ctctgaagGTGGCTAGTTTTGGTGGGTTTTTGCTTAAAGAGAATATCTTGACACTCTCTTTTGCCCCAAGAGATTCACATAAATCTCAAATACAATTTGCTCTGGAGA
upper sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g01990.t01 (Vitis vinifera), 3'ss of exon 2
gtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtt----tagcatgaaaatattttttg---------tgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
|||||| || |||||||| | |||||| || | | | ||| || || | || || || | || ||||||||||||||||| || || |||||| |||| ||| ||||| | || |||||||| || |||||||||||||||||||||||||||||||| ||||
gtaggagctgctttcctgtgtttatttgagctctaaccattgccctttttttcccctatatttttggaagatcacttaaaattgatttctcttgcagGTTGCCAGTTTTGGGGGGTACTTACTAAATCAAGGCATTTTAACTTTCTCATTTGCTCCTAGGGATTCACACAAATCACAGATACAATTTGCACTGGAAA
upper sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ38708 (Selaginella moellendorffii), 3'ss of exon 2
gtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtttagcatgaaaatattttttgtgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
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-----------------gtgagtagtagaagaagttttac-gccatttctaaat--gcatcgacgt-tcttctttgc----cagGTTGCGAGCTTTGGTGCTTACATGCTTCGCAAGGATGTGCTTACGATGTCTTTTGCTCCGAGAGACTCACACAAAGCACAGATCCAGTTTGCTTTAGAAC
upper sequence: GLYMA03G01870.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ31436 (Selaginella moellendorffii), 3'ss of exon 2
gtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtttagcatgaaaatatt--ttttgtgctttac-agGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
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-------------------------gtgag----tagtagcagaagtttacgccatttctaaatgcatcgatgttcttctttgccagGTTGCGAGCTTTGGTGCTTACATGCTTCGCAAGGACGTGCTTACAATGTCTTTTGCTCCGAGAGACTCACACAAAGCACAGATCCAGTTTGCTTTAGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaccttattactagaatttcttgtttagcatgaaaatattttttgtgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
ttttttgt CT-rich tract
tttagcatgaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggatctattttcctgtttccttttgagaccttattactagaatttcttgtttagcatgaaaatattttttgtgctttacagGTTGCCAGTTTTGGAGGATATTTACTAGCTCAAAACATATTAACCATGTCTTTTGCTCCAAGAGATTCACACAAATCACAGATACAATTTGCACTTGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA