Sequence
atgc intronic sequence ATGC exonic sequenceTATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
Basic information
species | Glycine max |
transcript | GLYMA02G41170.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g49980.2 (Oryza sativa), 5'ss of exon 5
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| ||||||||| ||||| || ||||||||| || || ||||| |||||||||||||||||||||||| |||| |||||||| ||||| ||||| ||||||||| || | | ||| | | | | | ||| | || | || |||||| | | | |
TGCTGACAAAACAATCTTTAGCTGGGATTCCTTTACTAGTCCTTGGCAACAAAATTGACAAGTCAGAAGCTGTTTCAAAGCAAGCGTTGGTTGATCAACTgtgagttt--actaccttttctgtgtgagcttgtcatccttgagtggctaattactgaa-tgatgtttcaactgaag-------------------------------------
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g49980.1 (Oryza sativa), 5'ss of exon 5
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| ||||||||| ||||| || ||||||||| || || ||||| |||||||||||||||||||||||| |||| |||||||| ||||| ||||| ||||||||| || | | ||| | | | | | ||| | || | || |||||| | | | |||| ||| |||||| | |||||||
TGCTGACAAAACAATCTTTAGCTGGGATTCCTTTACTAGTCCTTGGCAACAAAATTGACAAGTCAGAAGCTGTTTCAAAGCAAGCGTTGGTTGATCAACTgtgagttt--actaccttttctgtgtgagcttgtcatccttgagtggctaattactgaa-tgatgtttca--------actgaag---tggtctttctc----atgtatttcag
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G089454_T03 (Zea mays), 5'ss of exon 4
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| ||||||||| ||||| || |||||| |||||||| ||||| |||||||||||||||||||||| ||||| ||||| |||||||| ||||| ||||||| || || | || | ||| || | |||| | | || | | | | || || ||| || | |
TGCTGACAAAACAGTCTTTAGCTGGGATTCCCTTGCTTGTCCTTGGCAACAAAATTGACAAGTCAGAAGTGCTTTCGAAGCAGGCATTGGTTGATCAACTgtgagctc--aatcttcatttgcctacgcatcattctactttctgcattataattcagctgaagctcttttg--acttttttgttttcag------------------------
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G171060_T02 (Zea mays), 5'ss of exon 6
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| |||| |||| |||||| || |||||| |||||||| ||||| ||||||||||||||||||||||| ||||| ||||| || ||||| ||||| |||| || || | | | || | || || | || | | | || || | || | | | | | | | | | ||| | ||| ||||||
TGCTGACGAAACAGTCTTTGGCTGGGATTCCCTTGCTTGTCCTTGGCAACAAAATTGACAAGTCAGAAGCGCTTTCGAAGCAGGCCTTGGTTGATCAACTgtaagctcaa--------------ccttcatttgcttactc----ataattatactttc----tgcatgatatctcagctcaagctctctgctctcttccctttttgttttcag
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G37680.1 (Arabidopsis thaliana), 5'ss of exon 4
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| | || ||||| ||||| | || |||||| | || ||||||| |||||||| || ||||| |||||||| ||||||||||| ||||| ||||| |||| |||| || || | | | | | || | | | | ||| || | || ||| |
TGCTAACGAAACCGTCTTTAAATGGCATTCCTCTTCTGATTCTTGGCAACAAAATCGATAAGTCTGAAGCTCTCTCTAAGCAAGCTTTGGTTGATCAACTgtaagtttcttattcaaagtccatacaaaacaatctggattcgagtatatgactttggattgttttg--atgcag---------------------------------------
upper sequence: GLYMA02G41170.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0006g01090.t01 (Vitis vinifera), 5'ss of exon 6
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctaga----------tatcaata---ttgtctt--atatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
| ||||||||||| || |||| || |||||||| |||||| |||| ||||||||||||| ||| ||||||||||| ||||| | ||||| | ||| |||||||||| | | |||||| | | || |||| | ||| | | ||| || | | | || ||| | | ||| | || |||| | ||||||
TCTTGACAAAACCATCCTTGACTGGAATTCCTTTACTTGTTGTTGGCAACAAAATTGACAGGTCGGAAGCTCTTTCGGAGCAATCGTTGGTGGGTCAACTgtgagttcagaaccagacgagttttcaataaaatcatttttgatatactatttgcctcgatggcaaacctttttt---tatattttgtgttttgacatattttttttcctccttggtggtggttttcagMapped 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|151393791|gb|EV263666.1|EV263666EST: AAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCT AGGACTTGAGTCAATTAAAGACAGAGAGGTCTGCTGCTATATGATTTCATG
genomic: AAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttcta ... ttgatttcagAGGACTTGAGTCAATTAAAGACAGAGAGGTCTGCTGCTATATGATTTCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATTGACAAAACCTTCTTTGAGTGCGATTCCTTTGCTTGTTCTTGGAAACAAAATTGACAAGTCAGAAGCTCTTTCTAAGCAAGCATTGGTAGATCAGCTgtgagttctagatatcaatattgtcttatatcttttttctttaaaaaaaaaaaattgtcctgatgtgttatgtaactaattgaacatttggattttctccttggttgatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT