Sequence
atgc intronic sequence ATGC exonic sequenceAGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagtcatggaaaactcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc...
Basic information
species | Glycine max |
transcript | GLYMA02G01510.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 5'ss of exon 4
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagtcatggaaaactcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgctt-ttctagagatgatgc
|| || || |||||||||||| | || || || |||||||| |||||||| ||||| ||||| || || || ||||| | |||||||||||||| || | | || |||| || || || | | | | || | ||||| |||| | || ||
AGGATTATCCGGTGTGGTGGACCCGTGGAGGATGATATGGCGAACATCATCGTTGCCCAGCTGCTATATCTCGATGCCATCGATCCTAACAAGgtgaaaatgatgaataagacgctatccgacatccaattcctatttcctataccaatagctgccaaagctttgttacgaactgcttactctaaaaatactg-
upper sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 4
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 5'ss of exon 4
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagtcatggaaaactcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc
|| || ||||| |||||||| || || |||||||||||||||||||| || || ||||| |||||||| ||||||||||||||||||| ||||| | | || || | | | || ||||| | || | | | || || || || | | ||||| | | || |
AGGATTATTCGCTGTGGTGGTGCTGTGGATGACGATATGGCAAACATAATTGTAGCTCAACTCCTGTATCTTGATGCTGTTGATCCTACTAAGgtcagatattg---ttgaattct----aattcatg-tcttgttacttgattcagatgttttgctttaggattctgatatttgcttatgttgaacag----
upper sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 5'ss of exon 4
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagtcatggaaaactcatggttccattta--tcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc--
|||||||| || ||||||||||| |||||||| |||||||||||||||||||| |||||||| || || |||||||||||||||||| ||||||| || || | || || || || || | | ||| | ||||| ||| | | ||| | ||| | | | |
AGAATAATCCGATGTGGTGGAGCTGTTGATGATGATATGGCAAACATCATAGTGGCTCAGCTTCTCTATCTTGATGCTGTTGATCCTGACAAGgtccgtatggtagcttagctgttgatgttcttatttttgtatgcaaattttccctctttgttattactat----tattattacgatttatcacaaaatgaacat
upper sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ35520 (Selaginella moellendorffii), 5'ss of exon 3
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagt-catggaaaac--tcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc
| |||||||| || |||||||| ||||| || ||||||||||| |||| ||||| ||||| || || || ||||||| ||||| || |||||||| | | || || | ||| | | | | || ||| | || ||
CGGATAATTCGATGCGGTGGAGCTGTTGACGATGATATGGCAAATCTCATTGTTGCGCAGCTTCTCTATCTGGATGCTGCGGATCCAAAGAAGgtttg----tgggttataacatgtagaagatggttaaagctcgattggtttttgtag----------------------------------------------
upper sequence: GLYMA02G01510.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ24258 (Selaginella moellendorffii), 5'ss of exon 3
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagt-catggaaaac--tcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc
| |||||||| || |||||||| ||||| || ||||||||||| |||| ||||| ||||| || || || ||||||| ||||| || |||||||| | | || || | ||| | | | | || ||| || || |
CGGATAATTCGATGCGGTGGAGCTGTTGACGATGATATGGCAAATCTCATTGTTGCGCAGCTTCTCTATCTGGATGCTGCGGATCCAAAGAAGgtttg----tgggttataacatgtagaagatggttaaagctcgattgattttgtag-----------------------------------------------Mapped 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|15204414|gb|BI427182.1|BI427182EST: ACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAG GATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
genomic: ACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttctt ... tgttgggcagGATATTGTCATGTATGTAAATTCTCCAGGAGGGTCAGTTACAGCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAATAATTCGGTGTGGTGGAGCAGTTGATGACGATATGGCAAACATCATAGTTGCTCAGCTCCTGTACCTTGATGCTGTTGATCCTAACAAGgtttgttcttagattttagtcatggaaaactcatggttccatttatcttcttatatcgttatctatataaagtgatcttatgcttttctagagatgatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT