Sequence
atgc intronic sequence ATGC exonic sequence...acaactacaactagtctatactacactaacaatatgaaatatctcatttaaagtctgtctcattcctcctttggttcattaatgaaatttttatcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTATCCCCCTGGTGGCATTTATGCTCATCCATCCATGCCTCCG
Basic information
species | Glycine max |
transcript | GLYMA01G01740.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G01740.2 (Glycine max), 3'ss of exon 3
lower sequence: AT2G35530.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------acaactacaactagtctatactacactaac-aatatgaaatatctcatttaaagtctgtctcattcctcctttggttcatta----atgaaattttta--tcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTATCCCCCTGGTGGCATTTATGCTCATCCATCCATGCCTCCG
| | | | | | | || | | | || | || | | | | |||| ||||| || |||| |||| | || | | |||||| | |||||||| ||||| ||||| || ||||| |||||||||||||||||||| |||||||| || || ||||| || |||||||||
gtgaactggcttacgctttatcgctttttactgtgatgtctatcggtgttcagagtgctggaaaattgcaacattcttattgacttataacgaattcgttcagctgtctttcatcatatctttgattgattactgaatgagacattaaattttgcagCATATGATGCCTCCTTATGGAACTCCGCCTCATCCTTATGTTGCAATGTATCCCCCAGGTGGCATGTACGCACATCCTTCAATGCCTCCG
upper sequence: GLYMA01G01740.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 4
acaactacaactagtctatactacactaacaatatgaaatatctcatttaaagtct-gtctcattcctcctttggttcattaatgaaatttttatcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTATCCCCCTGGTGGCATTTATGCTCATCCATCCATGCCTCCG
| || ||| | |||| | | ||| | | | | | | | || || | || | || | | ||| || | ||| |||||| | |||||||| |||||||| ||||||||||| ||||||||||||||||||||||||||| | |||||||||||||| || ||||||
agtgcttcaatttgtcttttcagcacctatttttttct-tctttaacccaatgttttgtttgatagtttgtacagttttaaaaaattttgtttgcttgcagCATCTAATGCCTCCATATGGTACCCCACCACATCCATATGTTGCAATGTATCCCCCTGGTGGCTTATATGCTCATCCATCTATTCCTCCGMapped 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|21255865|gb|BQ452753.1|BQ452753EST: GTTTCTTGGCATCAAATCCCCAGGCTCACCCTTATATGTGGGGTGTCCAG CAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTAT
genomic: GTTTCTTGGCATCAAATCCCCAGGCTCACCCTTATATGTGGGGTGTCCAGgtaattgtca ... ttatcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaaagtctgtctcattcctcctttggttcattaatgaaatttttatcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTATCCCCCTGGTGGCATTTATGCTCATCCATCCATGCCTCCG
cattaat putative branch site (score: 3)
tttttatc putative PPT
ttcattaatgaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaactacaactagtctatactacactaacaatatgaaatatctcatttaaagtctgtctcattcctcctttggttcattaatgaaatttttatcagcagCAATTTATGCCTCCCTATGGTACTCCACCACATCCCTATGTTGCAATGTATCCCCCTGGTGGCATTTATGCTCATCCATCCATGCCTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
-caactac
- - - - - - - - - - - -cactaac