Sequence
atgc intronic sequence ATGC exonic sequenceTGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttattctcagttataaacttataattgaaatattagggggaatagaacaaaggaacattctgttattgtttcagtttctcttgcttgctgattgt...
Basic information
species | Glycine max |
transcript | GLYMA20G36180.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
lower sequence: AC218972.3_FGT001 (Zea mays), 5'ss of exon 6
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGG-
||| | |||||| |||| ||||| |||||||| ||| |||| || || |||||| |||||| || || || ||||||||||||||||||||||| | | ||| | | ||| | | | || || ||| || | | | | || | | ||| | || | | ||| | | | ||
TGGTTAGTTGGAACACAGTACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCCCCATGGGCCATTGATTCTTGGGGACTAGgtgagcgtaaataactcttaatggttcctcctcatgcatgacatgcttgttatggttgtacttat--atatttttttttgagtaaagtacatttccggtcct------
upper sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G098078_T01 (Zea mays), 5'ss of exon 6
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttattctcagttataaacttataattgaaatattagggggaatagaacaaaggaacattctgttattgtttcagtttctcttgcttgctg-attgt-
||| | ||||| |||||||| |||||||| ||| |||| || || |||||| |||||| || || ||||| |||||||||||||||||||| ||||| | || || || | || | | | || ||| | ||| | || | ||| || | | | | || || |
TGGTTAGTTGGGATGCAATACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCTCCGTGGGCCATTGATTCTTGGGGACTGGgtgagcataaatctcttgatggtttctcatgcatggcatgcttgttatggaattgttta-tattttttt-tggttacaatatatgggagaagttgtgttcta
upper sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 6
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgta-tgttattctcag---ttataaacttataattgaaatattagggggaatagaacaaaggaacattc---tgttattgtttcagtt---tctcttgcttgctgattgt---
||||| || ||| |||| ||||| ||||||||| ||| || ||||| |||| ||| |||| ||| ||||| ||||||||||||||||| ||||| | |||| ||| || | | ||| || | ||| || || || | | || | | || | || |||| ||||| | | || ||| || ||
TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagtttttatgccttactaattctcaatggagattatatgctcc-tcgacccttagtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag
upper sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 5'ss of exon 6
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttattctcagttataaacttataattgaaatattagggggaatagaacaaaggaacattctgttattgtttcagtt-tctcttgct-tgctgattgt--
||||||||||| |||||||||||||||||||| || ||| ||||||||||| ||||| | ||| ||||| |||||||||||||||||||||||| |||||| || | | | ||| | | | | | ||| ||| | | | | |||| || || | | |||||| || | || ||
TGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTTGGGGCTTGGgtaagtcttccactgttt----ccttttgtaggtatagtagatgcgttcatagtttgttacataaagtggtttaataaacgatctcttactattgtgcttccccMapped 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|37997477|gb|CF809066.1|CF809066EST: GGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGG GTTCTCTAATCTATGAGCTATTCTCTGGTATGAAGTTGGGCAAAACAGAGG
genomic: GGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttatt ... tattttatagGTTCTCTAATCTATGAGCTATTCTCTGGTATGAAGTTGGGCAAAACAGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgtatgttattctcagttataaacttataattgaaatattagggggaatagaacaaaggaacattctgttattgtttcagtttctcttgcttgctgattgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC