Sequence
atgc intronic sequence ATGC exonic sequence...gtgttgtttttattctttaaattgtatatggaattggatcactgaatagcttgattttttaatggctgattgctttgtttgtatgtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
Basic information
species | Glycine max |
transcript | GLYMA11G10810.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g02270.t01 (Vitis vinifera), 3'ss of exon 1
gtgttgtttttattctttaaattgtata----tggaattggatcactgaata--gcttgattttttaatggctgattgctttgtttgtatgtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
| | |||| || | || || ||| | || | || | || |||| ||| ||| | | ||| || | ||| | |||||||| ||||||||||| ||||||||||| ||||||||||||||||| |||||||| ||||||||||||| |||||||| |||||||||||||||||||
ttagttttttggcagttcaggtttgattagtttggtttcaagtcgtcggatcttgagtgtcattttgatgtctg--tatatgatttccattt----ttttgttcagATGCTTGGAGATGAGATCGGAAAAGGAGCATATGGTCGAGTTTACAAGGGTTTGGATTTGGAGAATGGAGACTTTGTTGCAATTAAACAAGTTTCTTTGG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S99_12V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgttgtttttattctttaaattgtatatggaat-tggatcactgaatagcttgattttttaatggctgat-tgctttgtttgtatgtga---gatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
| || || | ||| || ||| | | || || | |||| | | || | || || ||| |||| ||||||||||||| || || ||||| || ||||| ||||| ||||| || ||||| |||| |||||||||||||| || || ||||| ||||| |||
-----acatacgaactagcaacaatcgctggtatctggcttttccagagactcttacttgcatccagtgatgtaatatgatgtcatatggtttgatggttggcagTTGCTGGGAGATGAAATCGGTAAAGGGGCATATGGCCGAGTGTACAAGGGATTGGATTTGGACAATGGAGATTTTGTGGCGATCAAACAGGTTTCGCTGG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S131_142V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgttgtttttattctttaaattgtatatggaattggatcactgaata-gcttgatttt---ttaatggctgattgctttgtttgtatgtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
| | | |||| |||| | || ||| | || ||| | || ||| || ||| | ||| || | | | ||||||||| || || || ||||||||||| || ||||| ||||| |||||||| ||||| |||||||||| || ||||| ||||||||||| || || ||||
----gggatatgttctcctgcttgtttttgagattctttggctcaatgtgtcagaatttagcttttctgctagtgtcttgactttgaccaattgtatttggcagATGCTTGGTGACGAAATTGGAAAAGGTGCATATGGGCGAGTGTACAAAGGGCTGGACTTGGAGAATGGCGACTTTGTGGCCATTAAACAGGTCTCATTGG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ18166 (Selaginella moellendorffii), 3'ss of exon 1
--gtgttgttt-ttattctttaaattgtatatgga-attg-gatcactg--aatagcttg-attttttaatggctgattg------ctttgtttgtat-gtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
| ||| || || | |||| | || || ||| || | ||||| | | || ||| | | | || || ||| ||||||| ||| ||| | ||||| | |||||||| || || ||||| || ||||| ||||||||||||| ||||||||||| ||||| || ||||| || ||||| || |||||| |||
gtgagtttttcattctcctttttttggtttagggagatcgtgatcattttcattatcttttgtatcgtgctgatcagtttttccttcttcttttgtatcgtgtaatt--aaacagATAATAGGAGATGAAATCGGGAAAGGTGCATATGGCAGAGTTTACAAAGGCTTGGACCTGGAAAATGGGGACTTTGTGGCAATTAAGCAGGTTTCTCTGG
upper sequence: GLYMA11G10810.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ14289 (Selaginella moellendorffii), 3'ss of exon 1
--gtgttgttt-ttattctttaaattgtatatgga-attg-gatcactg--aatagcttg-attttttaatggctgattg------ctttgtttgtat-gtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
| ||| || || | |||| | || || ||| || | ||||| | | || ||| | | | || || ||| ||||||| ||| || | ||||| | |||||||| || || ||||| || ||||| ||||||||||||| ||||||||||| ||||| || ||||| || ||||| || |||||| |||
gtgagtttttcattctcctttttttggtttagggagatcgtgatcattttcattatcttttgtatcgtgctgatcagtttttccttcttcttttgtatcgtgtaatc--aaacagATAATAGGAGATGAAATCGGGAAAGGTGCATATGGCAGAGTTTACAAAGGCTTGGACCTGGAAAATGGGGACTTTGTGGCAATTAAGCAGGTTTCTCTGGMapped 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|38193206|gb|CF922412.1|CF922412EST: AGACGACGTCGTCTGCTTTCACTAAATCGAAGACCCTCGACAATAAATAT ATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGT
genomic: AGACGACGTCGTCTGCTTTCACTAAATCGAAGACCCTCGACAATAAATATgtacgccatt ... tttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagcttgattttttaatggctgattgctttgtttgtatgtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
ttgattttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgttgtttttattctttaaattgtatatggaattggatcactgaatagcttgattttttaatggctgattgctttgtttgtatgtgagatttggagcagATGCTGGGAGATGAGATTGGAAAAGGAGCTTATGGTCGAGTTTACAAAGGTTTGGACCTGGAGAATGGAGATTTTGTTGCCATTAAACAAGTTTCTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
-tgttgtt
- - - - - - - - - - - - - - - - - - - -cactgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgtg