Sequence
atgc intronic sequence ATGC exonic sequencegtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctgaaactaccaaaacgtgtccattcctttgtgtggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
Basic information
species | Glycine max |
transcript | GLYMA17G00770.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 3'ss of exon 4
gtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctgaaactaccaaaacgtgt-ccattcctttgtgtggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
||| || | ||| || | | | ||| | | | | | | | |||| | | |||||||| || || || ||||||||||| | ||| || || ||| | || ||||||| |||||||| ||||| |||||||||||||| ||
-----------------------------------------------gtat-ataatcagtatcacttttgttcttctacatttatatcatggataattacattattctgaaattttctagAAAGAGGACCTAAAATGTGTGGTGTCATACCTACGGACCACTAAGCAAGTTTCCTGTATAGGCCTTTGGGGGCGATCGATGGGTGCTGTTACAAG
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G092895_T01 (Zea mays), 3'ss of exon 4
gtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctga-aactaccaaaacgtgtccattcctttgtg-tggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
|| || | | | || | | ||| |||||| || || || || | | ||| | | | | || | |||| | |||||||| | ||||| | | || | | || || ||| | ||| ||||||||||||||||||| || |||||||||||||| ||
-----------------------------gtgcgtacacactataaatt-ttgtagcaacattc---atattctattttaaatggcaagtcctgaaaaatattaccactgtggtactcccagAAGCAGGATCTCAAATGTGCTGTGTCCTTTCTGCGTAAGAATAAGCAAGTTTCTTGTATAGGTCTTTGGGGACGCTCAATGGGTGCTGTTACAAG
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G17150.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctgaaactaccaaaacgtgtccattcctttgtgtggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
| ||| || | ||| || || | | | ||||||| | ||| || | || | | | ||||| ||||||||||||| ||||| || || |||| | || ||| ||| |||| ||||| || ||||||||||||||||||||||| ||||| ||
-----------------------------------gtgtgttttcgggtcttacttt----ctcaaggttcttcgtcttttccttatcta---aattttttcttcttaaacttaagctagAAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTATCCCGTATTGGACTTTGGGGACGATCTATGGGTGCAGTTACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatattccatcttttctgaaactaccaaaacgtgtccattcctttgtgtggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
tccattccttt CT-rich tract
atctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctgaaactaccaaaacgtgtccattcctttgtgtggtagAAAGATGATCTCAAGATGGTGGTGTCATATTTGAGGAGCAACAAACAAATATCTCGTATAGGTCTTTGGGGACGATCTATGGGTGCTGTTACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT