Sequence
atgc intronic sequence ATGC exonic sequenceCTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttccgagaagttgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ36513 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: LOC_Os04g42280.1 (Oryza sativa), 5'ss of exon 4
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttcc---gagaagttgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------------
|| |||||||| ||||| || || ||||||||||||||||| ||||||||| ||| | | || | || | | | || || | ||| || | | | |
CTGAAGGAGTATATTGATGATACAGAGGATTTCATCAACATACAACTGgtatagtccccaaatatcttcttcatacttgatagttaatttggtagcagatcaatttccaatctcacaacagaattggcttgtttcttatccaatactg
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: GRMZM2G064467_T01 (Zea mays), 5'ss of exon 4
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtacttt-ccgagaagttg--tcgatccaaggtttttcggtttttgatcgatggtctttg-gttttgatcgtccag------------------------
|| |||||||| ||||| ||||| || |||||||||||||| ||||||||| || || || | | | || | | | | | | || | |||| | | || ||
CTAAAGGAGTATATTGATGACACAGAAGATTTCATCAACATACAACTGgtaattcacccgcaaatcgattaaattcccattatgtagatgcaggaagagttgtctgcatgctactcccgggcaactgtgtgaaagcatgtagatgatt
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: GLYMA15G00510.1 (Glycine max), 5'ss of exon 5
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtacttt--------ccgagaagt--tgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------
| || || |||||||| |||||||| |||||||||||||| |||||||| || || || | |||| || | | | || ||| || ||| | || | ||||| | ||
TTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtc-atgtttcttatgtctgatcatacatgcaaattattgcacatgtt
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
----------------------------------------------------CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgta------ctttccgagaag----ttgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------
| || || |||||||| |||||||| |||||||||||||| |||||||| |||||| | | |||| || | | | || ||| || ||| | || | ||||| | ||
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtc-atgtttcttatgtctgatcatacatgcaaattattgcacatgtt
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: GLYMA13G44820.1 (Glycine max), 5'ss of exon 5
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtacttt--------ccgagaagt--tgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------
| || || |||||||| ||||| || |||||||||||||| |||||||| | || || || | |||| || | | | || | || ||| | || | ||||| | ||
TTGAAAGAATACATTGATGACACAGAAGATTTCATCAACATTCAACTGgttcgttttctttcccccagggttcatgtcaattttatttatcctaattatctgtc-atgtttcttacgtctgatcatacatgcaataatttattgcacat
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: AT1G16010.3 (Arabidopsis thaliana), 5'ss of exon 6
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttccgagaagttgtcgatcca-aggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------
| |||||||||||||| ||||| || |||||||| ||||| ||||||||| | | | || | |||| || | | | ||| || | | || | |
TTAAAGGAGTACATTGATGACACTGAAGATTTCATTAACATTCAACTGgtaatacctcaaaattccatcttccacagctgatattaatccagattgagaatgcacaagagtcatgctgaaaacctcttcaatatctgcag
upper sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
lower sequence: AT1G80900.1 (Arabidopsis thaliana), 5'ss of exon 4
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttccgagaagttg-tcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag---------------
| ||||||||||| || || ||||| |||||||||||||| ||| ||||| || | ||| || | || | | | || | | || ||| | | | |
TTAAAGGAGTACATCGATGATACCGAAGATTTCATCAACATTCAATTGgtataccttgaaatcttgatcttttttagatatcttatttgctta--gaaaaccttaagaatctgctgaaaatttctggaatttgcagMapped 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|169030774|gb|FE436794.1|FE436794EST: CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTG GACAATGTGAGGAACCAGCTGATCCAGTTCGAGTTGCTGCTCACGACCGCG
genomic: CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttccg ... gatcgtccagGACAATGTGAGGAACCAGCTGATCCAGTTCGAGTTGCTGCTCACGACCGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttccgagaagttgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag
- AAGGAG
- - - - - - - - - - - - GAGGAT