Sequence
atgc intronic sequence ATGC exonic sequenceAGGATTTGATGAAATTGGAGAACCGAGTCTCCACCTTCGTTGATGATCCAAATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatccttttctttttacagatttatttgtcttgaataccactgggacaggatttttgttttctgtgatgttcatgctggagggattgcaaaatga...
Basic information
species | Glycine max |
transcript | GLYMA02G11260.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os11g01439.2 (Oryza sativa), 5'ss of exon 5
AGGATTTGATGAAATTGGAGAACCGAGTCTCCACCTTCGTTGATGATCCAAATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatccttt--------tctttttacagatttatttgtcttgaataccactgggacaggatttttgtt---ttctgtgatgtt---catgctggagggattgcaaaatga------------------------------
| || || | ||||| || | || || | || |||||||||||| || ||||||||| ||||| ||||| |||||||| |||||||||||||| ||||| | | | | || ||| |||| | | | | | | |||| | | ||||| || || || ||| | |
AAGACCTGCTAAAATTAGAACATAAGGTTTCGTCGTTTACTGATGATCCAAAGCTTGCATGTGAAGAAGCTCTCAAGAAGATGTATTCCTTGCTTGAAAAgtaagcatctcctctgaaccattctctcccaaattccattgttcttcagagtgagataataaatatcttgtcaagtccaaatatgtttagcaagcataagcatttgatgtttaattggactaacaagtattatacttatgtcag
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 5'ss of exon 6
AGGATTTGATGAAATTGGAGAACCGAGTCTCCACCTTCGTTGATGATCCAAATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatccttt---------tctttttacagatttatttgtcttgaataccactgggacaggatttttgtt---ttctgtgatgtt---catgctggagggattgcaaaatga------------------------------
| || || | ||||| || || || || | || |||||||||||| || ||||||||| ||||| ||||| |||||||| |||||||||| ||| ||||| | |||| | || ||| | || | | | | | | |||| | | | || || || || || ||| | |
AAGACCTGCTAAAATTAGAACACAAGGTTTCGTCGTTTACTGATGATCCAAAGCTTGCATGTGAAGAAGCTCTCAAGAAGATGTATTCCTTGCTTGAAACgtaagcatctcctctgaaccattcttctcccaaattacatggttcctcagagtaagataataaatatcttgtcaagtccaattatctttagcaagcataagcatttgatgtttaattggactaacaagtatcatacttatgtcag
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv01s0011g02860.t01 (Vitis vinifera), 5'ss of exon 6
AGGATTTGATGAAATTGGAGAACCGAGTCTCCACCTTCGTTGATGATCCAAATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatccttttctttttacagatttatttgtcttgaataccactgggacaggatttttgttttctgtgatgttcatgctggagggattgcaaaatga-
| || ||||||||||||||||| |||||||| || || | |||||||| || || |||||||||||||||| ||||||||||| |||||||| |||||||||| | |||| || || || || || | || | || | || | | | | || |||||||
AAGACTTGATGAAATTGGAGAAGCGAGTCTCTACTTTTGAAGATGATCCCAAACTGTCATGTGAAGCTGCTCTAAAGAAAATGTACTCATTGCTCGAAAAgtatgtgatttcttctctt-gcatgttcatcagtttaaaacatagaacattatggctacatggtggcgaaaaggacttcagcaactcaataacaaaatgctMapped 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|13791699|gb|BG654290.1|BG654290EST: AATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAA AGTGGAGCAAAGCGTATATGCTCTCTTGCGGACAAGAGAT
genomic: AATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatcc ... ttctttccagAGTGGAGCAAAGCGTATATGCTCTCTTGCGGACAAGAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGATTTGATGAAATTGGAGAACCGAGTCTCCACCTTCGTTGATGATCCAAATCTCCCATGTGAAGCTGCTCTGAAGAAAATGTATTCATTGCTTGAAAAgtatgcatccttttctttttacagatttatttgtcttgaataccactgggacaggatttttgttttctgtgatgttcatgctggagggattgcaaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA