Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcattaatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
Basic information
species | Glycine max |
transcript | GLYMA10G38770.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G43810.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcattaatttaaagcactt--ctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG----------------------------
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----------------gtaaaaaacctaaacagatct---ctgaatgctcatactatgagaatactgttat--gttaattcgtctctctttgcttgctacagCTTAAGTATCACGAGAACGGGAAAGAAAAAGATTGTCTCCCGCAAGTTGGTCAGTGGAATATGATGAACAAGAAAATGATCAACGGGATGACTGTGAGCA
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 9
gtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcattaatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
||||| | || || || || | || ||| | | | | | | | || || | |||| | | || | || | ||||||| |||||||| |||| |||||| || ||| | ||||| || ||||| |||||||||||||||||||||||
gtaatat---tcaccatcctaaatttatatatgtgaaagatgataggtattac--acattgtgcctgat-----ctgactt----ctattttatctgcagCTGAAATATCATGAAACTGGGAAGGAAAAGGATTGTTTGCCTCAAGTCGGTCAGTGGAATATGATGAACAAA
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 10
gtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcatt-aatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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---------------------------------------------------gtatgtcttccgaagatcgttaattcaagctctaacgttttctga--cagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 10
gtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcatt-aatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
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---------------------------------------------------gtatgtcttccgaagaccgttaattcaagctcaaacgttttctga--cagTTGAAGTATCATGATACTGGACGGGAGAAAGACTGCCTTCCTCAAGTTGGGCAGTGGAATATGATGAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttaatttaccttttccctgtcattcattaatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
cattaat putative branch site (score: 3)
cacttct putative PPT
tcattcattaatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtgcttctccttctaaagatctgatttgtcatatactgaaactttaatttaccttttccctgtcattcattaatttaaagcacttctgaatgcagCTTAAATATCACGAAAGTGGGAAAGAGAAGAACTGTTTACCCCAAGTTGGTCAGTGGAATATGATGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA