Sequence
atgc intronic sequence ATGC exonic sequence...cagatttggttggactttatttgtaaggtgcatgatgccactatcatgatgattttttttctttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
Basic information
species | Glycine max |
transcript | GLYMA20G00320.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 13
-------------------------------------------------------------cagatttggttg-gactttatttgtaaggtgcatgatgccactatcatgat--------gattttttttctttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
|| |||||| || | | | | | ||| || || | | | || || ||| | | | | || | || || || ||| ||||||||||| |||||||||||||| ||||||||||| ||||| ||||| ||||| ||| | ||||||||||| || ||||| ||||| || || || ||
gtaggccttttagaaagattttttttttcacttgattctttgtgtgtacttttattctgagtagggttggttttaacactgtaatcatgatctatgccccctcttacttatttggaatcaagccttgttcatttatttttgtggtgaaagtttttcttatttgcttccagGCCATTGACGCAAGAGATGCTTTAGCAAAGTCAATCTATGCCTGCCTATTTGACTGGCTAGTTGAACAGATTAACAAATCTCTTGCGGTGGGAAAGAGGA
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 13
cagatttggttggactttatttgtaaggtgcatgatgccactatcatgatgattttttttct--ttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
||| || || | | | | | | | | | |||| || || | || | | ||| | |||||||| | || |||||||||||||||||||||||||| ||||| ||||| ||| | ||||||||||| ||| ||||||||||||| || ||||| |||||||| || || || |
-agacttttaattcctccgaagacgatgattgtatttttagtcccgtccttcttttactttaaattttacattttcttgatattctttttttt-tttttcagGCCATTGATGCAAGAGATGCTTTAGCAAAATCAATCTATTCGTGCCTGTTTGACTGGCTGGTTGAACAGATCAACAAATCTCTTGCTGTGGGAAAGAGGC
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 12
--cagatttggttggactttatttgtaaggtgcatgatgccactatcatg-atgattttttttctttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
| |||| ||| | || | | | || |||| || | | ||||| || | ||| | | || |||| ||||| ||||||||||| |||||||||||||||| || ||||| ||||| || | ||||| ||| |||| ||||| || || || ||||||||||| || ||| | |
gtctaattt--ttgaatttggagtaacttggataaaattccacggatatttgtaagacattttcccctatgat-tattatcaaatcttgttttcgtcttccagGCCATTGACACAAGAGATGCTTTGGCGAAATCAATTTATGCTTGTTTATTTGACTGGCTGGTCGAACAAATCAACAAGTCACTTGCTGTAGGAAAACGGCMapped 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|208104539|gb|GD904530.1|GD904530EST: CGCTATCACAG GCAATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTT
genomic: CGCTATCACAGgtaaaatgac ... tgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatgattttttttctttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
tattttttttgtctt CT-rich tract
attttttttctttctc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagatttggttggactttatttgtaaggtgcatgatgccactatcatgatgattttttttctttctcaatatcttaaatagtattttttttgtcttgcagGCCATTGATGCAAGAGATGCTTTGGCAAAGTCAATATATGCATGCCTGTTTGATTGGTTGGTTGAACAGATAAATAAATCACTTGCTGTTGGCAAAAGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - tggttgg
- - - - - - - - - - - - - - -gcatgat
- - - - - - - - - - - - - - - catgatg
- - - - - - - - - - - - - - - - - - gccacta