Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaaacacaatataaacacactactctgttgtgtaagccatcttatgtcttcaaaatttactaagctagggtgatgactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
Basic information
species | Glycine max |
transcript | GLYMA15G01090.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01090.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g16430.1 (Oryza sativa), 3'ss of exon 5
-gtatgt-aaacacaatata-aacacactactctgttgtgtaag-------ccatcttatgtcttcaaaat-ttactaagctagggtgatgactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
|| | | || ||||| || || || | | ||| || | || |||| | | ||| | | | || |||||||||||||||| ||||||| || || ||||| ||||||||||| ||||| || || || || |||||||
gtcatcttatgcagcatatataatactttatttttgcgtgaaatgaaagattttttttttgtcattgtagcattatttacaaaatagtttgtatatgcagATATTACCTTGTGGAGAAGGCGAAGGATGCAAATATTGTTGGCATTTTGGTGGGGACCCTGGGTGTTG
upper sequence: GLYMA15G01090.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G59630.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------gtatgtaaacacaatataaa--cacactactctgttgtgtaagccatcttatgtcttcaaaatt----------tactaagctagggtgatgactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
||| | |||||||| || | || || | | | |||| ||| |||| | || | || || ||| | |||||||||||| ||||||| | |||||| ||||| |||||| | || ||||| || || |||||||||||||
gtataatcacttttttcaagcagacattatacat-cacaatatgaaactttgtcaatcatttcgatcttctttattatctctgttgaattacatttcaagtcctcattcagagttatgtgt-tgcagATATTACTTGGTGGAAAAAGCTAAGGATGCGAATATTATAGGTATTTTGGTGGGGACTCTTGGTGTTG
upper sequence: GLYMA15G01090.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0094g00370.t01 (Vitis vinifera), 3'ss of exon 5
------------------------------------------gtatgtaaacacaatataa-acacactactctgttgtg--taagccatcttatgtcttcaaaatttact--aagctagggtgatgactatg----cagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
||||| | || | | |||| |||| | ||| ||| | | | ||| | | | | ||| || |||| |||||||||| | ||||||| || || ||| |||||||| ||||| |||| || |||||||||||||| |
gtagtacttgtgcttctgctaaacttacaatgcatttaatgtctatgtccttatgtgatgatgtaattctctctcttgttcctttataatcagttgtttactagttttgttgcatgattttctgaggaatatgttgacagATATTACTTAGTGGAGAAGGCAAAGGATTCTAATATTATTGGGCTTTTGGTGGGAACTCTTGGTGTAGMapped 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|208317166|gb|GE111873.1|GE111873EST: AATCGAATGGTGACAGACCTGTTTCAACATAGGAGGATTCTTAAACGTAG ATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGT
genomic: AATCGAATGGTGACAGACCTGTTTCAACATAGGAGGATTCTTAAACGTAGgtatgtaaac ... gactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGT
EST:
gi|254315125|gb|GR830118.1|GR830118EST: AATCGAATGGTGACAGACCTGTTTCAACATAGGAGGATTCTTAAACGTAG ATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGT
genomic: AATCGAATGGTGACAGACCTGTTTCAACATAGGAGGATTCTTAAACGTAGgtatgtaaac ... gactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaagccatcttatgtcttcaaaatttactaagctagggtgatgactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
ttcaaaatttactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaaacacaatataaacacactactctgttgtgtaagccatcttatgtcttcaaaatttactaagctagggtgatgactatgcagATATTACCTGGTGGAGAGAGCTAAAGATGCTAATATTGTTGGGATTTTAGTTGGAACTCTTGGTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG