Sequence
atgc intronic sequence ATGC exonic sequenceGGCTCTTGCACAGATCGTTAGACTGGTGGAGGCGGCACAAATGGCCAAAGCTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATGgtacgcgtatgtgtttcgctgttgtgtgactgatggttcttcttttacttctttcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ22741 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ22741 (Selaginella moellendorffii), 5'ss of exon 2
lower sequence: GRMZM2G143512_T01 (Zea mays), 5'ss of exon 2
GGCTCTTGCACAGATCGTTAGACTGGTGGAGGCGGCACAAATGGCCAAAGCTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATGgtacgcgtatgtgtttcgctgttgtgtgactgatggttcttcttttacttctttcag----------------------
|| || ||||||||||| ||||| || ||| | ||||||||||| |||||||| || |||||||||||||||| |||||| || ||| || || ||||| || | | | ||| | | |||| | ||| |
TGCACTGGCACAGATCGTAAGACTAGTTGAGTCCGCACAAATGGCAAAAGCTCCTGTCCAGAAGTTCGCTGATCAGATATCTAGAGTCTTTGTCCCACTGgtatgctcagttacgtttttgtaataaaatcaatgggggtaaacttatcaatgctgaataatcttccccatgtttgcag
upper sequence: EFJ22741 (Selaginella moellendorffii), 5'ss of exon 2
lower sequence: AT1G63440.1 (Arabidopsis thaliana), 5'ss of exon 2
GGCTCTTGCACAGATCGTTAGACTGGTGGAGGCGGCACAAATGGCCAAAGCTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATGgtacgcgtatgtgtttcgctgttgtgtgactgat--ggttcttc-----ttttact-tctttcag------------------------
|||||||| ||||| ||| |||| || ||| | |||||| ||||||||||||| || |||||||| |||||||| || || | ||| ||||| | || | || || | || | | | || || || ||| | ||| |
TGCTCTTGCTCAGATTGTTCGACTTGTTGAGTCCGCACAACTGGCCAAAGCTCCAGTACAGAAGTTGGCTGATCGGATTTCCAAGTTCTTTGTTCCTCTTgtgagta-atctgaccagttgataaacaaattatttagtcttttagaggcacaactattttttaaactcactggattataatgttgaagMapped 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|169083102|gb|FE496398.1|FE496398EST: CTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATG GTTGTTCTTGCATCAGCTTTAACATGGGGTCTGTGGTTTGCTGCTGGAAAA
genomic: CTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATGgtacgcgtat ... cttctttcagGTTGTTCTTGCATCAGCTTTAACATGGGGTCTGTGGTTTGCTGCTGGAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCTCTTGCACAGATCGTTAGACTGGTGGAGGCGGCACAAATGGCCAAAGCTCCCGTTCAGAAGTTCGCTGATCGTATATCTCGATACTTCGTTCCCATGgtacgcgtatgtgtttcgctgttgtgtgactgatggttcttcttttacttctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT