Sequence
atgc intronic sequence ATGC exonic sequenceGTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt...
Basic information
species | Glycine max |
transcript | GLYMA08G45270.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgt-cctttattattgttttt--ccatctt--taattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt
|| || ||||||||||| || ||||||||||| || || ||||||||||| ||||||| ||||| |||||||| |||||||| ||||||||||||||| | |||| | | |||| || || | | | | ||| ||||||||| ||| || ||| | || | ||| |
GTCAATCCTTCAGATGTAATTATTTTGGAAGGAATTCTGGTTTTCCATGATTCACGTGTCCGGGATTTGATGAACATGAAGATCTTTGTTGACACAGgtatcaatatttgcatgccaaactgtcttattatctctagctcttgcccatgaccagtaatcatcagttgtacgtgt-ggtcagtatg--attatttccatat--
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os11g16370.1 (Oryza sativa), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatct-----ttaattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt
|| || ||||||||||| || ||||||||||| || || ||||||||||| ||||||| ||||| |||||||| ||||||||||||||||| |||||| | || ||| | | || | | ||| | | | | | || ||||||||| |||| || || | || ||| ||
GTCAATCCTTCAGATGTAATTATTTTGGAAGGTATTCTGGTTTTCCATGATTCACGTGTCCGGGACTTGATGAACATGAAGATATTTGTTGATACAGgta-tcaatgtttgcacaccaaactgatgataatctcaaactcttgcccatgaccagcaaccatcagttgtacttgt-ggtcagtgtgtttaattgtttatt---
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttatttttttattgtaaattttcagttgtattt-gttagtttgtaagggatatg-gttcatcttt------
|| || |||||||||||||| ||||||||||| || || ||||| ||||| |||| | |||| |||||||| |||||||| || ||||| |||||| | | | ||| || | || | || | || || | | | | |||| |||| || | | | | || || |
GTTAATCCTTCAGATGTTATTATTTTGGAAGGAATTCTAGTTTTTCATGATTCACGCCTCAGGGATTTGATGAACATGAAGATCTTCGTTGATACAGgt-----acaaatatttgcttata---agttgatgatgttttcttctgtctcccttgcctgttgatattccagaagttcccaatgcacaagcattgattcctgactat
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 5
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt---
|| || ||||| |||||||| ||||||||||| || || ||||| ||||| |||| | |||| |||||||| |||||||| || ||||| |||||| | || ||| || | | | || | | | | || ||| || ||| | | || | | ||| | | || |
GTTAATCCTTCGGATGTTATTATTTTGGAAGGAATTCTAGTTTTTCATGATTCACGCCTCAGGGATTTGATGAACATGAAGATTTTCGTTGATACAGgtacca-atatttgcttataagttgatgttttcttctgtctctcttgcctgtcgatattcca--gaagttcccaatgcacaagcattgattcccgactatatt
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G55810.1 (Arabidopsis thaliana), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtccttt--attattgtttttccatctttaattcag---aatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt-----------------------------
||||| ||||| || ||||||||| ||||||| || || ||||||||||||| || || || || |||||||| |||||||||||||| ||| |||||| || || | | | | || || ||| | | || | | || |||||| ||| || | | | | || ||| |
GTGAATCCTTCTGACGTTATAATTCTGGAAGGTATACTCATTTTCCATGACCCTCGGGTGCGAGATTTGATGAACATGAAGATATTTGTAGACGCAGgtctttcccataccaaacctgttaacacttatgtagtcaaatccgtagcatatatgagacgctgcacttgtatatgtactcatgaaggtaacaca-ttggtctcttattttacatcatggcgttatctatgcag
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttattttt---ttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt
|| |||||||||||||| ||||||||||||||||| || |||| ||||| | ||||| ||||| |||||||| ||||||||||||||||| |||||| |||| || || ||| | | | ||| || | || | | | | || | | | | ||||| | | | || ||
GTCAACCCTTCAGATGTGATAATTTTGGAAGGCATACTCATTTTTCATGATCTTCGTGTCCGGGAATTGATGAACATGAAGATATTTGTTGATACAGgttctttctttctgcctttactgcagaatgtcaattcttgtacttggtcttgtcttatttattaatagcttttgtccaggcatgaactgtgcttttagtc---
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S370_24V6.1 (Physcomitrella patens), 5'ss of exon 4
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcag-aatttatttttttattgtaa-----attttcagttgtatttgttagtttgtaagggatatggttcatcttt---------------------------------------------------------------------
|| || | || ||||| || || ||||| || || || | || || || || ||||| || || |||||||||||||| |||||||||||||||| | ||||| || ||| || || | ||| | || | |||||| | ||| || |||||| | || || | || |
GTAAATGCGTCTGATGTCATTATCTTGGAGGGGATACTAATCTTTCACGATGTTCGAGTTCGTGAATTCATGAATATGAAGATCTTTGTTGACACAGgtc----agcattgtaaatcatcacctaacgcaataactcgtttctgtaaggccgctgtgattttctgcagtagttattagttctt--ggcctaccatgcaacccgctgaaaccggtagtcattgaggccagtatcgcatctccatagggactcatgttgaactgtgcagtgcag
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S83_234V6.2 (Physcomitrella patens), 5'ss of exon 6
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtc--ctttattattgtttttccatctttaattcagaatttattt--ttttattgtaaattttcagttgtatttgttagtttgt-aagggatatggttcatcttt------------------------------------------------------------------------------------
|| || | || ||||| || ||| |||| || || | | || ||||| | ||||||||||||| |||||||||||||| |||||||| ||||||| | || | | || ||| |||| | || | | || || ||| ||| || ||||||||||| | | || | | | |||
GTCAATGCATCTGATGTAATTATTGTGGAGGGAATATTGATCTTTCATGATGCTCGTGTTCGGGAGTACATGAATATGAAGATCTTTGTTGATACAGgtcagcattgagaatcattacccagttttatatagctcttggtctcattctaatgtgtgtttgaggtcacctttgttagtttcttgaatgagttagatattctgcacctactgcacaacccgttatgagttggctcttgaagccagagacgtgtcggctcggacactcatcttgaacagtgcagtgcag
upper sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ31180 (Selaginella moellendorffii), 5'ss of exon 5
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt
||||| | ||||||||||||| ||||||| ||||| |||||||||||| || ||||| || ||||||| |||||||| ||||| ||||||||| | | | | | || |||| | | | | | |
GTGAATGCAGCAGATGTTATAATCCTGGAAGGAATCCTGGTTTTCCATGACAGTCGCGTTCGTGATCTGATGAACATGAAGATTTTTGTCGACACAGgtttgccgcttctttggctatcctggcattttagaagtgctctccacaccgcag----------------------------------------------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|13478669|gb|BG508053.1|BG508053EST: TGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAG ATGCTGATGTTCGTTTGGCAAGAAGAATTAGGCGTGACACTACTGAGA
genomic: TGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttatt ... ttcagtgcagATGCTGATGTTCGTTTGGCAAGAAGAATTAGGCGTGACACTACTGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGAACCCTTCAGATGTTATAATTTTGGAAGGCATCCTTGTTTTCCATGACCCACGTGTTCGGGAGTTGATGAATATGAAGATATTTGTTGACACAGgtcctttattattgtttttccatctttaattcagaatttatttttttattgtaaattttcagttgtatttgttagtttgtaagggatatggttcatcttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA