Sequence
atgc intronic sequence ATGC exonic sequencegtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatgactggaaaaagttataagtttgtagtttatattcatgattggtatttcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
Basic information
species | Glycine max |
transcript | GLYMA10G04370.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 4
gtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatgactggaaaaagttataagtttgtagtttatattcatgattggtatt-----tcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
||||| | ||| | | | | || ||| | | | |||||||| || | || | | || || || | || |||||| || || | |||||||| || || | | || ||||||||||| |||| ||||| | ||| |||||||||| ||||| ||||| || |||||||||||||||||||
gtaagtttgttctttagaatcttt-caccaataatttcttatcacaaacatgatacatatttaaatgttgggctttttcaaacttcattattgtgattcatcttttctactatctggcagATGCTAAAGTTCAAAGATAACAATATTAACAATGAGGGAATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G067764_T02 (Zea mays), 3'ss of exon 4
gtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatgactggaaaaagttataagtttgtagtttatattcatgattggtattt--cagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
||| | | ||| || || || | | || | | || | || | ||| | | ||| |||||||| || || | || || |||||||| || | ||||| | ||| |||||||||| ||||| ||||| || |||||||||||||||||||
-----------------------------------gtaagccttttgtcttgattcttttgtaagtt------gccctgaaattctttaatcta-acccatctctactgtttggcagATGCTAAATTTCAAGGATAACAATATAAACAATGATGGGATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatgactggaaaaagttataagtttgtagtttatattcatgattggtatttcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
||| | | || | | | | | | ||| || | | ||| | | |||||||| | ||| |||||||| || ||||| |||||||| | ||||||| ||||| || | | || |||||||||||||||||||||| ||||||||||| |||||||||
------------------------------gtaaggcagttactagatctt--atgtggaatagaggtgtgtgtccatcttcatttactgatactattcatg---gaaattgcagATGCTTAATTTTCCGAACAATGTTTTGAACAATGGGGGAAGGCTGAGGACATTTCTTGATGTTGGCTGTGGTGTTGCTAGCTTTGGAGGTTATCTTCTTG
upper sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G14360.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatga---ctggaaaaagttataagtttgtagtttatattcatgattggtatttcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
||| | | || || || | || | || | | | | | |||| || ||||| || | ||||||||||| |||| ||| ||||| ||| | ||||| | ||||| || | | ||||| |||||||| ||||||||||| || |||||||| |||||| | |
------------------------------gtaaggaagttac----acttggtgtttgtacaagagaacgtatattattctttcatttgctaattgtattcttgga-aatttttcagATGCTTAACTATCCTAACAACGTGCTGAACAACGGTGGAAGGCTAAGGACGGTTTTCGATGTTGGTTGTGGTGTTGCGAGTTTTGGAGGTTATCTTTTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgactggaaaaagttataagtttgtagtttatattcatgattggtatttcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
aaaaagttataagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctagttactcctatccggtatggcactaaaataatcaccaaaacatgaaactcttatatgactggaaaaagttataagtttgtagtttatattcatgattggtatttcagATGCTCAACTTTCCAAACAATGTGATTAACAATGAAGGAAGACTTCGCAATGTTTTTGATGTTGGCTGTGGTGTTGCAAGCTTTGGAGGATATCTTCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT