Sequence
atgc intronic sequence ATGC exonic sequenceGCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
Basic information
species | Glycine max |
transcript | GLYMA10G00830.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| || || || || || ||||| || || |||||||||||||||||||| || || || ||||| |||| |||||||||||| | || | | | | || || ||| | | | | ||| | ||| || | || |
GCATACTCCACTGTCGGTACACCGGACTACATTGCTCCAGAAGTTCTTCTAAAAAAGGGTTATGGAATGGAGTGTGATTGgtaa---gcatcgtttacataaatatctcgtgccatggacctcttgag--------tttgcagtaaagaaattgaataatttcaactatctag---------------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G088245_T01 (Zea mays), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| || || || || |||||||| || || || |||||||||||||||||||||||||| || || |||||||||| |||||| || | || || || | || | || | | | ||| ||||||| |
GCTTACTCGACCGTCGGAACACCAGACTACATCGCTCCAGAAGTTCTTCTGAAGAAAGGCTACGGGATGGAATGTGACTGgtaag---------------catctccttgcaccatcgatcgc---attgatgagtctagtctcaaacaaatcccatgtttccag-----------------------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 7
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| ||||| |||||||| || ||||| |||||||| ||||||||||| |||| ||||||||||| |||||||||||||||| | | | | ||| || | | | || ||||| ||| | ||| || ||| || |
GCTTATTCCACAGTTGGCACTCCTGACTATATTGCCCCAGAAGTTCTGTTGAAAAAAGGATATGGAATGGAATGTGATTGgtaggtgaagccaacctattcctatttgtggtctttgatttctttggtg--------------taaataaataatatgggtgaata-atcttgagatttag-------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 7
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaa-tatag--aatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| ||||||||||||||||| ||||| |||||||||||||||||| | ||||||||||||||||| |||||||||||||||| | || ||| |||| | || |||||||| || || || | | | | || | | |||| ||| | |||| | | |
GCTTATTCTACAGTTGGAACTCCTGACTATATTGCTCCAGAAGTTTTGTTGAAGAAAGGATATGGCATGGAATGTGATTGgtaggtgcagcaaatctgttgggtcttgttctgtttt----gtttcttcaactcaaa--atacattgttgtcga--taattttttcgggttttct--tcctatag------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaa----tatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
||||||||||| ||||| || ||||| || |||||||||||||| || || |||||||||||||| |||| |||||||||| | || || ||| || || | || | | ||||||||| | | || | ||||| | | ||||| ||| | | |
GCCTATTCTACTGTTGGTACCCCTGACTACATTGCTCCAGAAGTGCTGCTTAAGAAAGGATATGGGATGGAGTGTGATTGgttggttctctaaaac-tgtcatcatcttctatgatctg---ttttccccatgg--attagtttcctcatataaccatc-tgtttgaatttctccag---------------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgta-atatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag---
|| ||||| ||||| || || || |||||||||||||| ||||| || ||||||||||| ||||| |||| ||||| ||||| || |||| || || |||| | || | | | || |||| | | | || || || | ||| ||| ||| | || ||
GCATATTCAACAGTCGGCACTCCAGATTATATTGCTCCTGAAGTACTGCTGAAGAAAGGCTATGGGATGGAGTGTGACTGgtatgcatcgaat-tgattcatattact--------gaaacttgctcttgat-gtccctggtctaagttgagct--gtgcccca------tatgacattgactcattatttggagttg
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ29515 (Selaginella moellendorffii), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| ||||| || || || || || |||||||||||||| |||||||| |||||||| ||||| || |||| |||||||||||| | | | || | | ||| | |||| |
GCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTGgtaagaggcatttctgattgaaaatatctaccggcttgattgatttatggtgcctag---------------------------------------------------------
upper sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ28086 (Selaginella moellendorffii), 5'ss of exon 6
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
|| ||||| || || || || || |||||||||||||| |||||||| |||||||| ||||| || |||| |||||||||||| | | | || | | ||| | |||| |
GCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTGgtaagaggcacttctgattgaaaatatctaccggcttgattgatttatggtgcctag---------------------------------------------------------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|254348922|gb|GR852601.1|GR852601EST: ATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTG GTGGTCTCTAGGAGCTATAATGTATGAAATGCTTGTGGGGTATCCTCCCTT
genomic: ATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatataga ... atgcttccagGTGGTCTCTAGGAGCTATAATGTATGAAATGCTTGTGGGGTATCCTCCCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCTATTCTACAGTTGGAACACCTGATTATATTGCTCCAGAAGTTCTTCTGAAGAAAGGATATGGCGTGGAATGTGATTGgtaatatagaatgtgttttctatttttctgtttcaaaagtctccccatggccacccctccccccttataaacttaatgtttcaatgcattctgatgttgtgtcaatgcttccag
- - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA