Sequence
atgc intronic sequence ATGC exonic sequenceCTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
Basic information
species | Glycine max |
transcript | GLYMA09G00970.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G103070_T01 (Zea mays), 5'ss of exon 14
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaaga-aatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
| ||||||||| | ||||| | || |||||||| || ||||| ||||| ||||| ||||| ||| | || |||||||| || ||||||||||| ||||||| | | | | | || || | | || | || || || | | | || | | | || | |
CAGAGTTTGCAATGTCTGGCATTTATACTGTAAAGAGCGATGTATACAGTTTTGGAGTGGTAATGTTAGAGCTATTGACAGGGCGGAAGCCACTAGACAGgtatgtgatctagattgtatccaatcctggttcgcttcagcttcgaagtggttgt--tgaaatagcctttggatgatcattgcag-----------------------------------
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: AT4G22130.2 (Arabidopsis thaliana), 5'ss of exon 9
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
| ||||||||| | || ||| | ||||| || ||||||||||| |||| ||||| || || ||||| || || || |||||||||||||| |||||||||| | | |||| || ||| || | || | | || | | | ||| || || |||| | | | || ||||
CAGAGTTTGCACTGTCGGGAATTTACACAGTGAAAAGTGATGTATACACTTTTGGAGTAGTCATGCTTGAGCTCTTAACTGGTCGGAAGCCTCTTGACAGgttt-cttttcatatttttagtagccaatgttgagcaatagccaatgtgagcaaaagcc-tgatttgagtttccttatgtaaaatgtgctttgtgtatgtgtag---------------
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv10s0116g00100.t01 (Vitis vinifera), 5'ss of exon 14
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgt-gagcctaccatac-ttgatgtaaagaaatcatgtccatcacttaaatgttt-atccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
|||| ||||| |||||||| |||||||||||||||| ||||| ||||||||||||||||| ||| |||| || ||||| ||||||||||| || ||||||| || | | ||| ||| || | | || | | | | |||| ||| || | | |||| | || | | |||| ||| | | ||||| |||||
CTGAATTTGCTTTATCTGGTATATACACTGTAAAAAGCGATGTGTACAGCTTTGGGGTGGTGATGTTGGAGCTGTTGACAGGTCGGAAGCCCCTGGACAGgtagaacatgtgctacattgctgaacacccatt-tttgtgttcttgaaatattttatagcattctttaatctcttgacattggtttgtttctatggttctcatcttcttttttgtgttttag
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ07060 (Selaginella moellendorffii), 5'ss of exon 4
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgag--cctaccatacttg-atgtaaagaaatcatgtccatcactt--aaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
| |||||||| | ||||| || |||||||| || || ||||||||||||||||| ||||| |||||||| || | || || | || | || ||||||| | | | | ||| || || | |||| | | | ||| | | | | ||
CGGAGTTTGCCATGTCTGGCGTGTACACTGTCAAGAGCGATGTTTACAGCTTTGGAGTGGTGATGCTGGAGCTTCTAACCGGAAGAAAATCGCTAGACAGgtaaaatcttgaagttcttccatccaagagttttatgtaagtaagctccaaacttgaaacttccag----------------------------------------------------------
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ37538 (Selaginella moellendorffii), 5'ss of exon 13
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
||||||||||| | ||||| || || || || ||||| ||||| ||||| ||||| ||||| |||||||| ||| |||| || || ||||| || ||||||| || | || || || | || | || ||||| | |||| | | ||
CTGAGTTTGCAATGTCTGGTGTTTATACCGTTAAAAGCGATGTGTACAGTTTTGGAGTGGTGATGCTGGAGCTACTGACAGGGCGTAAGCCTCTGGACAGgtaaggtttcc-tagtt--ttcaaggttatatgttccattagctaaagaggtgttctattcag--------------------------------------------------------
upper sequence: GLYMA09G00970.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ18843 (Selaginella moellendorffii), 5'ss of exon 4
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
| |||||||| | ||||| || |||||||| || || ||||||||||||||||| ||||| |||||||| || | || || | || | || ||||||| | | |||| ||||| | || || || |||| | | | || | | || | ||||
CGGAGTTTGCCATGTCTGGCGTGTACACTGTCAAGAGCGATGTTTACAGCTTTGGAGTGGTGATGCTGGAGCTTCTAACCGGAAGAAAATCGCTAGACAGgtaa-------aagcttg-----aagaagt----tcttccatccaagagttt----tatgtaagtaagctccaaacttgaa--acttccag----------------------------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|23731723|gb|BU764001.1|BU764001EST: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAG TTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACT
genomic: TTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctac ... gcaagtttagTTCACGGGTTCGATCAGAGCAGTCACTTGTGAGGTGGGCTACACCACAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGAGTTTGCATTATCTGGAGTATACACTGTAAAAAGTGATGTTTACAGCTTTGGGGTGGTTATGCTGGAACTATTGACTGGTCGGAAGCCACTTGACAGgtgagcctaccatacttgatgtaaagaaatcatgtccatcacttaaatgtttatccttcattattatctttcttttctgtatggcttcttacattcatttgtaatttttgcaagtttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA