Sequence
atgc intronic sequence ATGC exonic sequenceACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcagggaactctatttgaagaataagtag...
Basic information
species | Glycine max |
transcript | GLYMA09G17040.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g06520.t01 (Vitis vinifera), 5'ss of exon 3
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcactt----ggctttgat------aacatatgaatgaa-atttgtgtggttttgtattgt--tgattctggaaactaatcagggaactctat-ttgaagaataagtag--------------------------------------
|||||||||||||||||||||||||||||||| || ||||||||||||||||||||||| |||||||||||| |||| ||||||||||| ||||| |||||||| ||||| | ||| || || | || | ||| | | |||| || || | | ||| | | || | | ||| || || ||||||
TCCAAGCAGCATGAAAATTAAGGTGGTGGCACCCCCGGAGAGGAAGTACAGTGTCTGGATCGGAGGCTCCATTCTGGCTTCCCTCAGCACTTTCCAGCAGgtacaccactttcttgtcttccattcatacaaaaagcacataaccattcgaatcattttcaatagtaatcaccttgggatccgatgtgtggttgctaagttaaaatataagtccatgacaacaattttgtcttgtggttgttttgattgcag
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S337_26V6.1 (Physcomitrella patens), 5'ss of exon 4
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctt-tgataacata--tgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcagggaact--ctatttgaagaataagtag
|||| |||||||| || ||||||||||| || |||||||||||||||||||| ||||| ||||| || ||||||||||| ||||| ||||||||||||||| || || || | | || || ||| | | || |||| |||| | || | | | | ||| | | | ||| | | | ||
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtatttcttttatattacagttgcttagttgcatgcataatctg-atttttatattact--tttttgcattttatctgcattttgacgtgttggggtttttgcag
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 5
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggct------ttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaac--------taatcaggga---actctatttgaagaataagtag-------------------
|||| |||||||| || ||||||||||| || |||||||||||||||||||| ||||| ||||| || ||||||||||| ||||| ||||||||||||||| | ||| || | | ||| | ||| | || || | | ||| |||| ||| | || || | ||| | || | ||| |
ACCATCGAGCATGAAGATAAAGGTGGTGGCGCCGCCAGAGAGGAAGTACAGTGTATGGATAGGAGGGTCTATTTTGGCATCTCTCAGTACCTTCCAACAGgtaatgtatttgactcgtgtctgagttgcatttcgtgtttttttttatgtcttcatgtctttgtttcttcaaatgctcgcgtttgtcgaggctgtaatctttctggaatttaatccgtttacttgttgtggtgcag
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S372_48V6.1 (Physcomitrella patens), 5'ss of exon 3
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcaggg---aactctatttgaagaa--taagtag-------------------------------------
|| |||||||| || ||||||||||| || || |||||||||||||| || ||||| ||||||||||| ||||||||||||||||||||||| |||||| | | ||||| | | | | || | ||| | | | || | | | || | | | | ||| ||| | ||
GCCGTCAAGCATGAAGATCAAGGTGGTGGCGCCTCCGGAGAGGAAGTACAGCGTGTGGATCGGAGGCTCCATCTTGGCATCCCTCAGCACCTTCCAGCAGgtaaactgagtttgcatgatattttctacgttggacgtggtaaatattgaacttct--tttcagttagcagtcggaatttgagtatgtttcgagaggttggttaattcggtgtttgcacatattgttctttctgtggtgcag
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ17401 (Selaginella moellendorffii), 5'ss of exon 3
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcagggaactctatttgaagaataagtag
|| ||||||||||| || |||||||| || || || |||||||||||||| |||||||||||||| || || |||| || |||||||||||||||||||||| || |||| | | | || | | ||||| || | | |||| | |
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATTGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattctttt---gctcgtttttcttatcagccttgtttttctttttcgtttctcgcag---------------------------------
upper sequence: GLYMA09G17040.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ35077 (Selaginella moellendorffii), 5'ss of exon 3
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcagggaactctatttgaagaataagtag
|| ||||||||||| || |||||||| || || || |||||||||||||| |||||||| ||||| || || |||| || |||||||||||||||||||||| || |||| | | | || | | ||||| || | || | | |
TCCCAGCAGCATGAAGATCAAGGTGGTTGCTCCTCCGGAGAGGAAGTACAGCGTCTGGATCGGAGGTTCTATCCTGGCTTCGCTCAGCACCTTCCAACAGgtaccacaacattctttt---gctcgtttttcttatcagccttgtttttctttttcttttttcgcag---------------------------------Mapped 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|12772671|gb|BG237525.1|BG237525EST: GTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAG ATGTGGATTGCAAAGGCAGAATATGATGAATCTGGCCCTTCAATTGTTCAC
genomic: GTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcact ... ctgagagcagATGTGGATTGCAAAGGCAGAATATGATGAATCTGGCCCTTCAATTGTTCAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCAAGCAGCATGAAAATTAAGGTGGTGGCACCACCAGAGAGGAAGTACAGTGTCTGGATTGGAGGCTCCATTTTGGCATCCCTCAGCACCTTCCAACAGgtacatcacttggctttgataacatatgaatgaaatttgtgtggttttgtattgttgattctggaaactaatcagggaactctatttgaagaataagtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG