Sequence
atgc intronic sequence ATGC exonic sequenceCGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatgctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgatatatgt...
Basic information
species | Glycine max |
transcript | GLYMA20G00320.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 5'ss of exon 6
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaag--attcctgacttgtgatgctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgatatatgt
||||| |||| ||||| |||||||| || | || || |||||||| || || |||||||| ||||| ||| | |||||||||||||||||||| |||||||| ||| || || || |||| | || | | || || || | || || ||| | ||||
AGGTGGGGGTGGCATAGAATATGAGATCCTACAAACCAACCCAATACTCGAGGCTTTTGGCAACGCAAAGACACTAAGAAATGACAACTCAAGTCGCTTTgtaagtaatttcttgtgggtattg-taataccacaatgtagaaca---aagagtt--tgattgatatccttgttttgtattacag-----------------
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G113202_T01 (Zea mays), 5'ss of exon 6
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatgctaattctttaaattgccattcttgtgaattg--ctgctacattcccccactttcagtcacagaaatagttgatatatgt
||||||||||| || || || || ||| | |||| ||||||||||| || || |||||||||||||| |||||||||||||| |||||||||||||||||||| || | || | || | || | | | || || | ||| || || | | || | |||
AGGTGGAAGTGGCATTGAATACGAAATTCTTCAGACAAATCCAATACTCGAGGCTTTTGGCAATGCAAAGACATTGAGAAATGATAACTCAAGTCGTTTTgtaagttttatttattcttgtg-tgatgactgtgttcactatactacagctttgaatgaagaccgatccttattcacaattgcag-----------------
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G139583_T02 (Zea mays), 5'ss of exon 6
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatgctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgatatatgt
||||||||||| || || || || ||| | |||| ||||||||||| || || |||||||||||||| |||||||||||||| |||||||||||||||||||| || | | | || ||| || | | | | |||| | | | | ||| | |||
AGGTGGAAGTGGCATTGAATACGAAATTCTTCAGACCAATCCAATACTCGAGGCTTTTGGCAATGCAAAGACATTGAGAAATGATAACTCAAGTCGTTTTgtaagttttat--ttattcgtgtgtgttcactatactacagcttc---gaatgaagatcaa---tctttattctcaattgcag-----------------
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 5'ss of exon 7
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatg----ctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgatatatgt---
||||||||||| || ||||||||||| ||||||||||||| || | ||||| ||||| |||||||||||||||||||| || || || |||||||||||||| ||| ||| | | || ||| || | | |||| || | ||| | || || | | || | | | || ||
AGGTGGAAGTGGGATCGAGTATGAGATACTAAAGACTAATCCCATCTTGGAAGCATTTGGAAATGCAAAAACATTGAGAAACGATAATTCTAGTCGTTTTgtaagcgtccaaactccttgtttactcttatttcttttactctgtgtctttaaaacttctgggtctttatttatctcttaatctttctctgatgttaaatttgacag
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 5'ss of exon 8
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgac-ttgtgatgcta--attctttaaattgccattcttgtgaattgctgctacattcccccactttca-gtcacagaa-atagttgatatatgt----------
|| ||||| || || || |||||||| | ||||||||||| || | ||||| ||||| ||||||||||||||||||||||| || || |||||||||||||| | || |||| | || ||| |||| | || | | | | | || | || | | ||| || || | ||| ||||
AGGCGGAAGCGGGATCGAATATGAGATACTTAAGACTAATCCCATTTTGGAAGCATTTGGAAATGCAAAAACATTGAGAAATGATAATTCTAGTCGTTTTgtaagcccttcatcattctgatttttgtatatttttaattatc-ttatgctaagtcgttgagagttttaggtcttcgtacgtctcacaatgttgttttgatattaaaatatacag
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 5'ss of exon 6
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagat---tcctgacttgtgatg--ctaatt---ctttaaattgccattcttgtg--aattgctgctacattcccccactttcagtcacagaaatagttgatatatgt-----------------------------------------------------------------------
|| || || |||||||| |||||||| || || || ||||| || | || |||||||| ||||||||||||| |||||||||||||||||||| |||||||| | | | || || || ||| | ||| || || | | || | || || | |||||| | | | || | ||||
TGGCGGTAGCGGAATAGAATATGAGATATTGAAAACAAATCCTATCTTGGAGGCCTTTGGTAATGCAAAAACATCCAGAAATGACAACTCAAGTCGCTTTgtaagctacattttctttttcaatagcctgatttatccttatgttaacagttctatgttgaagattggcaccagcaattcttttcagaattaaagttttgtgttttatgcttttccccagtggtagtatttttttttgataggaagtggtagtattagtaatctaagtgaacatttttcag
upper sequence: GLYMA20G00320.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S17_368V6.1 (Physcomitrella patens), 5'ss of exon 6
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatgctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgat-atatgt-
|| || |||| ||||| | ||||| | | || ||||| || ||||||| |||||||| || || ||||||||||||||||| || ||||| ||||||| | ||| ||||| | | | || | || || | | ||| | |||| | | | || || | | | |
AGGCGGTGGTGGGTTAGAGGACGAGATCCTGCAAACAAATCCTATTTTAGAAGCATTTGGCAACGCCAAGACATTGAGAAATGACAATTCCAGTCGCTTTgtaatttgccttacttgatttattg-tcattcatgatgat-ttatggataatcatatttttattcacaggcagatcttgtagatgatggtgggtcacgggcaMapped 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|105633926|gb|DW247289.1|DW247289EST: AAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTT GGAAAGCTCATTGAGATTCACTTCAGTGAAACTGGAAAAATCTCCGGTGCT
genomic: AAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcc ... tatgtgacagGGAAAGCTCATTGAGATTCACTTCAGTGAAACTGGAAAAATCTCCGGTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGGTGGAAGTGGAATAGAGTATGAGATTTTAAAGACTAATCCAATACTAGAAGCCTTTGGCAATGCAAAAACATTGAGAAATGACAACTCAAGTCGTTTTgtaagattcctgacttgtgatgctaattctttaaattgccattcttgtgaattgctgctacattcccccactttcagtcacagaaatagttgatatatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccccc