Sequence
atgc intronic sequence ATGC exonic sequencegtctgtgcatcttttcatccatgcacagtctgaagagccatggttttgcctagGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ17251 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ31180 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------------gtctgtgcatcttttcatccatgcacagtctgaagagccatggttttgcctagGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
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gaaaattggatcactgattacagtttattcttctctttgtttatccatatctgttttactttatgtttcagagaaaccctaatattttgacttctgtc-agGTCAATCCTTCAGATGTAATTATTTTGGAAGGAATTCTGGTTTTCCATGATTCACGTGTCCGGGATTTGATGAACATGAAGATCTTTGTTGACACAG
upper sequence: EFJ31180 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: GLYMA08G45270.1 (Glycine max), 3'ss of exon 5
-------------------------------------------gtctgtgca--tcttttcatccatgcacagtctgaagagccatggttttgcct--agGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
| | | | || |||| | | | | | | | || | ||||||| | ||||||||||||| ||||||| ||||| |||||||||||| || ||||| || ||||||| |||||||| ||||| |||||||
ataaaatacattttacatgatagtccaaatgcataatttttagttttacaaagttgttgtcattctcatttcattttgtgttgccttatcgtgttttcagGTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAG
upper sequence: EFJ31180 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: AT1G55810.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------gtctgtgcatctt-ttcatccatgcacagtctgaagagccatggttttgcctagGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
| | | ||| | | || | | || ||||| |||||||| | | || |||||||| |||||||| || || ||||||||||| ||| || || ||| |||||||||||||||| ||||| ||| |||
ttacatgcactcttgtttgtcagatacataaacttgtcatcatagcctatataagaatcatgcttatactaatatttctctgtttatgatatatttgc--agGTGAATCCTTCTGACGTTATAATTCTGGAAGGTATACTCATTTTCCATGACCCTCGGGTGCGAGATTTGATGAACATGAAGATATTTGTAGACGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctgtgcatcttttcatccatgcacagtctgaagagccatggttttgcctagGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
ttttgcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtgcatcttttcatccatgcacagtctgaagagccatggttttgcctagGTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA