Sequence
atgc intronic sequence ATGC exonic sequenceTCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattctatagtccttttcatttctttttttgctagcaaaaaaaaattcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ27088 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ27088 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os04g40840.1 (Oryza sativa), 5'ss of exon 1
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattctatagtc--cttttcatttctttttttgctagcaaaaaaaaattcag---------------------------------------------
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TCTGCGTGTACTGCCCCGGAGGCCCCGACTCCGACTTCGAGTACAGCACCCAGTCCTACACCGGCTACGAGCCCACCAGCATGCGCGCCATTCGAGCAAGgtgatttacctcactggctactgatgtcacttggaaatactataccacctgtgagatgagctgcacggcgatgctttctctagtgttgttttgaagtatg
upper sequence: EFJ27088 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G100872_T01 (Zea mays), 5'ss of exon 1
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattc-------tatagtccttttcat---ttctttttttgctagcaaaaaaaaattcag-------------------------------------
||||||||||||||||||| || || || || |||||||| || ||||| || ||||||||||| || ||||| || |||||| | || ||||| ||||||||| ||| | | | | | ||| | |||| |||| | ||| ||
TCTGTGTCTACTGCCCGGGCGGTCCCGACTCCGACTTCGAGTACAGCACGCAATCCTACACTGGATACGAACCCACCAGCATGCGTGCCATTCGGGCAAGgtaatttcactggagtgcattggtgtccatgcttcctttaactgcttttatttaaacttttctgtacctaggagtgcagtgacttcgtgtttgtgttaca
upper sequence: EFJ27088 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G359735_T03 (Zea mays), 5'ss of exon 1
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattctatagtc--cttttcatttctttttttgctagcaaaaaaaaattcag---------------------------------------------
|||||||||||||||| || || || ||||| |||||||| || ||||| || |||||||| || || || || || |||||| | || ||||| ||||||| | || | || || || | | | || | | | |
TCTGTGTCTACTGCCCCGGCGGTCCCGATTCCGACTTCGAGTACAGCACGCAATCCTACACGGGATACGAGCCCACCAGCATGCGTGCCATTCGGGCAAGgtgatttagctcactggctgttgatgccgctgataaatactacacatgtaccttcttgtattgcttgaattgatgaaggtagtatccttgtttaggttagMapped 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|169070918|gb|FE478908.1|FE478908EST: CAGTCCTACACTGGGTATGAACCAACGAGCATGCGAGCAATTCGAGCAAG GTACAATCCTTATATACAGGCTCGAGGTCGAGTGGATCAACTCAGGCGTCT
genomic: CAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattcta ... aaaaattcagGTACAATCCTTATATACAGGCTCGAGGTCGAGTGGATCAACTCAGGCGTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTGTGTCTACTGCCCGGGAGGCCCAGATTCGGACTTCGAATATAGCACACAGTCCTACACTGGGTATGAACCAACGAGCATGAGAGCAATTCGAGCAAGgtaaattctatagtccttttcatttctttttttgctagcaaaaaaaaattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG