Sequence
atgc intronic sequence ATGC exonic sequenceTGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag
Basic information
species | Glycine max |
transcript | GLYMA19G41840.3 |
intron # | 21 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttat---gttattatttttaatttgtctcatattttctcttgggtgtatattctag
|| || |||||| | || || ||||||||||| || || |||||||| ||||| ||||| |||||||| || || ||||| ||||| || || |||||||| | || | || ||| ||| | |||||| | ||| | || |||| | | ||| | || | |
AGCATCAACCTTTTTAGCATTTCACCCTCAAGACAATAATATCATAGCAATTGGAATGGAAGATTCAACCATCCATATATACAATGTCAGGGTAGATGAGgtactgcatacataaaa----tttgcacatactgtaatttattgagccattgctattcatttatattgagctttattttctttccag-------
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G416836_T01 (Zea mays), 5'ss of exon 19
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag
|| || || ||| | || || |||||||||||||| ||||||||||| || || ||||| |||||||| ||||||||||| |||| || || ||| ||||||| | | || | | | | | || |||| | || ||| | | ||| | | | || | || | |||| |
AGCATCAACATTTTTAGCATTTCACCCTCAAGATAATAACATCATAGCAATAGGAATGGAAGATTCAACCATTCACATATACGATGTCAGGGTAGATAAGgtgataaatgcct---aatctatgatgcagtttatggttc-tgtgaatcatttcattcagccttctgac--ctttggggtttcag------
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G316967_T01 (Zea mays), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag
|| || || ||| | || || ||||||||||| || ||||||||||| || || ||||| |||||||| || |||||||| ||||| || || |||||||| || | | ||| | | | | | || |||| |||| ||| | ||| | | | || | || |||| | |
AGCATCAACATTTTTAGCATTTCACCCTCAAGACAATAACATCATAGCAATAGGAATGGAAGATTCAACCATCCACATATACAATGTCAGGGTAGATGAGgtaatcagtgtct---aatctctgatgcagtttatgattc-tgtggatcatttcattcagccttctgac--cttttggttttcag------
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: AT5G27030.1 (Arabidopsis thaliana), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag----------
|| || || ||| |||| ||||| ||||| || || ||| |||| |||||||| ||||| || || || |||||||| |||||||| ||||||||||||| | || | ||| ||| || | ||| | | | || | || | | | | | || | || | || ||
AGCATCAACGTTTTTGGCGTTCCATCCTCAGGACAATAACGTCATCGCCATTGGAATGGAAGACTCTACGATTCACATCTATAATGTCCGAGTGGATGAGgtaagtagtttctagtactaaccattgccacttatgtagtct-ttttgatctatgacaaggaaaaacttgtgaaccttacgttttttgaagaaatggttct
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaa-gatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag
||| || ||||| || || ||||| |||||||| || |||||||||||||| || ||||||||||| || || ||||| || |||||| | || |||||||| ||||| | | |||| || | | || | ||| ||| | || | | || || ||| || | |
TGCTTCAACCTTCCTAGCCTTCCATCCTCAAGACAATAACATCATAGCCATAGGAATGGAGGATTCTACCATCCACATTTACAATGTTCGGGTAGATGAGgtaattacatgataacattgttcaagtcttatcaatggtttgtgtagccctattaactgatgctgatgtttgctgcttctag----------
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtg-attacta--tctttaactgttt--ttttcattttaagatttatgttattatttttaatt----tgtctcatattttctcttgggtgtatattctag-------------------------------
|| |||| ||||| || || || || ||||| ||||| ||||| || || || ||||| ||||| |||||||| || ||||||||| | ||||||||||| ||| | || || | | | || |||| ||||| | | | | || || |||||| |||| | | | | | |
AGCAGCTACTTTTCTTGCATTTCATCCACAAGACAACAATATCATTGCTATCGGAATGGAAGATTCGACAATTCAGATTTATAATGTTCGTGTGGATGAGgtatgttatcaagtccttgccagataagttgcgcttttgtgatttgtcacacttgtgttgatgcatatgtctcg-gttttaatataagactgtcgttgatacgcttaataagatttctctgctgttcacag
upper sequence: GLYMA19G41840.3 (Glycine max), 5'ss of exon 21
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 21
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgatt-actatctttaactgtttttttcattttaag-atttatgttattatttttaatttgtctcatattttc--tcttgggtgtatattctag-----------------------
|| |||| ||||| || ||||| || ||||| ||||||||||| ||||| || ||||||||||||||||| || || ||||||||| | || |||||||| || || | || | ||| | || | | | |||||| | | | | | | |||| | || | | |||
AGCAGCTACTTTTCTTGCGTTCCATCCCCAAGACAACAACATCATTGCCATAGGAATGGAGGATTCAACAATACAGATTTATAATGTTCGTGTAGATGAGgtattttaccaggccgttctttctttgtgatctcccgtacctatgttgatttgtattcgtcagtttgtattctagatcccgaataatgtgcctaattagagctttctgctgttggcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|7232737|gb|AW568091.1|AW568091EST: TTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAG GTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTT
genomic: TTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattacta ... tatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCTCTACCTTTCTGGCTTTCCACCCTCAAGATAACAACATCATAGCCATTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA