Sequence
atgc intronic sequence ATGC exonic sequence...tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
Basic information
species | Glycine max |
transcript | GLYMA14G33410.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S18_231V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------------------------------------------------------tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttccat----tttgaaattattatatttctgtttt----ctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
|| ||| || || | | | | | |||| ||| | | ||| | | | |||| || || | ||| | |||| ||| ||||| || |||||||||||||| || ||||||||||| ||||| | ||| |||||||||||||| || |||||||| || || || |||||||| || || |
gtgtgatatggtttttgttttcaattgtatgatgcttttttgtgtcttatggacctgtcgcatctattagccttgtagctgaattttgaaatctgtagatgttagtatgtgctccttgtctctc--tcttattagaaattttaggtccggctgaaccgaaatgatctgaagttctt-tgtttttatttttcatctctcagGTGAGCCATCATCCAATGATTGTGGCATGTCACTGCGAGGGCAGAGGCTGGAAATTTTGGGGTGACAGCAACTTGAAAAGCAAGTTTTGGGGCCGTTCTA
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S67_260V6.1 (Physcomitrella patens), 3'ss of exon 5
tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttc---cattttgaaattattatatttct--gttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
|| | || ||||| | | |||| || ||||||| || || | ||| ||| | | ||| | || ||| | ||||| ||||||||||||||||| || |||||||| || ||||| | ||| |||||||| ||||| || ||||| || || || || ||||||||||| ||||
--ggagatatta--atttgcaacctctttgtc-atatctttcgagctttagattaagtaaaagttaatcatcttgcatcttctatctccctacgttgctttgcagGTGAGTCATCATCCAATGATTGTGGCATGTCATTGCGAGGGCAGAGGCTGGAAATTCTGGGGTGACAGCAATTTGAAAAGCAAGTTTTGGGGTCGTTCAA
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S427_40V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgttt--ccattttgaaattattata---tttctgttttct--cacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
| | | | || | | | || || | | || | ||| ||| | | |||||| | |||||||| | ||||| || ||||| |||||||| || ||||||||||| |||||| ||| |||||||| |||||||| |||||||| || || || ||||||||||| || |
gtttgacgcgattgtcattttctattgtttgacaatctcttaggagtctgatggaattgccacatttgttcgcgccgagatgtttctggtacttgtgcttcatctctaaggaattgtaggttggactgaactataattatctgaaatcctctgttttgcggcgcagGTGAGCCATCACCCAATGATCGTGGCATGTCACTGCGAGGGTCGAGGATGGAAATTCTGGGGAGACAGCAACTTGAAAAGCAAGTTTTGGGGTCGTTCTA
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S40_145V6.1 (Physcomitrella patens), 3'ss of exon 5
--tgaaaggcaatagaatttgaatttcaacaatggata--tgatt-atgcctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
| ||| | || | || | | || | ||| ||| | | ||||| ||||| | || ||||| | |||| | |||||||||||||||||||||||| |||||||| || || ||||| | ||| |||| ||| ||||| || |||||||| || || || |||||||| || || |
ctttaaacatttcgaacttcagaacataatatgagctaattaatttgcatcttccatctctacgtgtttttatttt----tatttttatttttattttgt-acagGTCAGTCATCATCCAATGATTGTTGCATGCCATTGCGAGGGCAGAGGGTGGACATTCTGGGGTGACAGCAACTTGAAAAGCAAGTTTTGGGGCCGTTCTA
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ15167 (Selaginella moellendorffii), 3'ss of exon 5
tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
||| | | || | | | | | | | |||| | | ||||| | |||||||||||| ||||| ||| | || || |||||||||||||| || |||||| | ||||| || ||||| ||||||||||||||||||| || ||||
--------------------------------------gttagccagtcagtttttttttctctgctacttgatgctgat---tttcttcgtctgtacagGTCAGTCACCATCCCATGGTGGTAGCCTGTCACTGTGAGGGACGTGGATGGAAACTCTGGGGCGACAGCAATCTAAAGAGTAAATTTTGGGGGCGTTCAA
upper sequence: GLYMA14G33410.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ08416 (Selaginella moellendorffii), 3'ss of exon 6
tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
||| | || | | ||| | | | || || | ||||| | |||||||||||| ||||||||| | || || |||||||||||||| || |||||| | ||||| || ||||| ||||||||||||||||||| || ||||
--------------------------------------gttagctagtcagcttttttct-ctgctactt----gatactgattttcttcgtctgtacagGTCAGTCACCATCCAATGGTGGTAGCCTGTCACTGTGAGGGACGTGGATGGAAACTCTGGGGCGACAGCAATCTAAAGAGTAAATTTTGGGGGCGTTCAAMapped 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|21285611|gb|BQ473482.1|BQ473482EST: CATATGAGGCTGACTTTCCAGATAAAGGCTTTCGATTTTTATCAGAGAAG GTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGG
genomic: CATATGAGGCTGACTTTCCAGATAAAGGCTTTCGATTTTTATCAGAGAAGgtttacttga ... tttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
tatttctgttttctc CT-rich tract
attttgaaattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaaggcaatagaatttgaatttcaacaatggatatgattatgcctttagaatatgtctgtttccattttgaaattattatatttctgttttctcacagGTCAGTCATCATCCAATGATAGTTGCATGTCACTGTGAGGGTACAGGTTGGAAATTTTGGGGAGATAGCAACTTAAAGAGTAAATTTTGGGGTCGGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT