Sequence
atgc intronic sequence ATGC exonic sequenceGCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc...
Basic information
species | Glycine max |
transcript | GLYMA17G09270.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g68320.3 (Oryza sativa), 5'ss of exon 5
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatt----tccatttgtgtgctactgatagtttaccaacc
||||| |||||||| ||||| || ||||| ||| | ||||| ||||| || ||||| |||||||||||||| || ||||| || ||||| || || |||| | | ||| || ||| || | ||| ||| | || || | | |||||| | | | | || | | ||||
TCACACTAACCTGCGAAGAGTAACATACCTCGTCCTGGATGAGGCTGACCGCATGCTTGACATGGGTTTTGAGCCCCAGATTCGTAAAATAGTGGCACAGgcatggcttgtt-ttagaatgcttata-tcagttctggtgttttggctaactctccattttttctattgtgctaaacgtttttgttgttaatag----------
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G63120.1 (Arabidopsis thaliana), 5'ss of exon 5
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacc--tcaaatctatt--tccatttgtgtgctactgatagtttaccaacc-----------------------------------------------------------------
||||| || || |||||||||||||||||| | ||||| ||||| ||||| |||||||||| |||||||| || || | || |||||| | |||||| |||||| | | | ||| ||| || | || || | ||| |||| || || | | | | |||||| |
ACACACTAATTTGAAGAGAGTGACTTACCTTGTACTGGATGAGGCTGACAGAATGTTAGACATGGGATTTGAACCCCAAATTAGAAAGATTGTATCTCAGgta-tgtttgtactttctccaaagctatcatgtagtgtctttaaggaaagggtggttgaccaacattattagtcgatagattttatcttcccagtttattgttctgttgctaaataagaaccatcacggcttttgttcagaacttgagattgttccttatttttcacag
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv17s0000g09130.t01 (Vitis vinifera), 5'ss of exon 5
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc---
|| || |||||||| ||||||||||||||||| |||||||| ||||| |||||| |||||||||| |||||||||||||| |||||||| | |||| ||| |||| | | || | || | | | | | | || | ||| || | | | || | ||| ||
ACATACAAACCTGCGAAGAGTGACTTACCTTGTATTAGATGAGGCTGACCGAATGTTAGACATGGGATTTGAACCTCAGATCAGGAAAATTATTTCCCAAgtatggtttcc--ttgctttgcttcct-ttctcatttacgagtcagcttaatttgcatcaggaataactttttggaaattataagcactgttcacttctatag
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S59_81V6.1 (Physcomitrella patens), 5'ss of exon 6
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtac---tgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc
|||||||| ||||||||||||| ||| | || || || || || ||||||||||| |||||||| |||||||| ||||| ||||| |||||| | ||||| || ||| | | | ||| | || | | | | | | | | || | ||
ACACACGAATTTGCGGAGAGTGACGTACTTGGTGTTGGACGAGGCCGATCGAATGCTGGACATGGGGTTTGAACCGCAGATTCGGAAGATTGTATCGCAGgtgagtatgggtgcgtgcgagggtgggttggcagcggttgaaaagtgcagcgagtgagttaggttgtggggcgcgctgggtagttgttgtcatggcacgt---
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ26152 (Selaginella moellendorffii), 5'ss of exon 5
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc
|| || ||||| ||||| ||||| || | || | |||||||||||| ||||||| |||||||| ||||| ||||| || | || || || | ||||||| | ||| | | | || || | | | | || | ||| | | || |
ACATACTAACCTTCGGAGGGTGACATATTTGGTGCTGGATGAAGCTGATAGAATGCTGGACATGGGCTTTGAGCCTCAAATCAGAAAGATAGTTGGACAGgtac--------gagagtatgcta-----tgccattgtgtgacg---agattaagttttgtttctttcactgttgcag----------------------
upper sequence: GLYMA17G09270.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ10791 (Selaginella moellendorffii), 5'ss of exon 5
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc
|| || ||||| ||||| ||||| || | || | |||||||||||| ||||||| |||||||| ||||| ||||| || | || || || | ||||||| | ||| | | | || || || || | || | ||| | | || |
ACATACTAACCTTCGGAGGGTGACATATTTGGTGCTGGATGAAGCTGATAGAATGCTGGACATGGGCTTTGAGCCTCAAATCAGAAAGATAGTTGGACAGgtac--------gagagtatgcta-----tgccattgtgt---ggcgagattaagttttgtttctttcactgttgcag----------------------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|15814206|gb|BI786481.1|BI786481EST: GAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAG ATTCGACCAGATAGGCAAACATTATTATGGAGTGCTACATGGCCAAGGGAT
genomic: GAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttg ... gaaataccagATTCGACCAGATAGGCAAACATTATTATGGAGTGCTACATGGCCAAGGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACACGAACCTGCGGAGAGTGACTTACCTTGTCTTAGATGAAGCTGATCGAATGCTAGACATGGGTTTTGAACCTCAGATACGGAAAATTGTAGCCCAGgtactgtttgcaactaacatgtaactagttagtactgagtaatggggaaaagaaacctcaaatctatttccatttgtgtgctactgatagtttaccaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaaga