Sequence
atgc intronic sequence ATGC exonic sequencegtatgataatataataatattaatacaacattcttagtctcagtctcagtttttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
Basic information
species | Glycine max |
transcript | GLYMA03G37420.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37420.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G02290.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgataatataataatattaatacaacattcttagtctcagtctcagtttttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
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-ttaaattctgtatcaatatcgtcaaaagatc--aaatctttattagttgttttctttcccctctttccaaaaaatctctaatttgtgtgttttgttgat----tagGTGGATTTGGTTGGAGGGTACTATGATGCAGGAGACAATATCAAATTTGGTTTCCCAATGGCATTCACAACCACAATGCTTTCATGGAGTGTAATTGAAT
upper sequence: GLYMA03G37420.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 1
gtatgataatataataatattaatacaacattcttagtctca-gtctcagtttttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
||||| | ||| | | | | | | | | || | || |||| | | || || | | | |||| || | ||| ||||||||| ||||||||||||||||||||||| || ||||||||||| |||||||| || || |||||||||||||||||||||||||| |||||||| || ||||
gtatg----tgtaaatgtgtatgctctgtttcttcaattacttgttttagatttttcatcttttga--agttggttttgttaatttgggcgtggaaatggaaatgcagGTGGATTTGGTTGGAGGGTACTATGACGCAGGGGACAATGTGAAGTTTGGGTTCCCAATGGCCTTCACCACCACCATGCTTTCATGGAGTGTGATCGAGT
upper sequence: GLYMA03G37420.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ21535 (Selaginella moellendorffii), 3'ss of exon 1
gtatgataatataataatattaatacaacattcttagtctcagtctcagtttttgtgttct--ctggcttgtgcacatggcttattt--ctgcattgaatgtacaatgcagGTTGATTTGGTT-GGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
|| | |||| | | || || | || ||| | || || | ||| ||| | | || | || || ||||| ||| || |||| ||||| || |||||||| || |||||||| ||||| | |||||||||||| ||||| || || || |
------------------------------------------gtatgcgtttctaagatcctgctcgttttgtaacaagctctacttgatctctttggttgttctcttcaagGTGGTTCTCCGAGGAGGCTACATCGACTCTGGAGACAACGTAAAGTTTGGATTCCCCATGGCATTCACGATCACCATGCTTTCATGGAGCGTGATAGAAT
upper sequence: GLYMA03G37420.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ23913 (Selaginella moellendorffii), 3'ss of exon 1
gtatgataatataataatattaatacaacattcttagtctcagtctcagtttttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTT-GGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
|| | || || | | || || | | | ||| | | ||| ||| | | || | || || ||||| ||| || |||| ||||| || |||||||| || |||||||| ||||| | |||||||||||| ||||| || || || |
------------------------------------gtatgcgtttctgagatcctgctcgttttataagaagctctacttgatct--ctttggttgttctcttcaagGTGGTTCTCCGAGGAGGCTACGTCGACTCTGGAGACAACGTAAAGTTTGGATTCCCCATGGCATTCACGATCACCATGCTTTCATGGAGCGTGATAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
ttatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgataatataataatattaatacaacattcttagtctcagtctcagtttttgtgttctctggcttgtgcacatggcttatttctgcattgaatgtacaatgcagGTTGATTTGGTTGGAGGGTACTATGATGCTGGGGACAATGTCAAGTTTGGTTTTCCCATGGCCTTCACCACCACCATGCTTTCGTGGAGTGTTATTGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG