Sequence
atgc intronic sequence ATGC exonic sequencegtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
Basic information
species | Glycine max |
transcript | GLYMA15G13640.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os03g43930.2 (Oryza sativa), 3'ss of exon 13
gtagtgtgtgtgaatttattaccgtttgcatatctt---atataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
| |||| || | | | ||| || || | || | || | ||| | | | || | | | | ||||||||||| || || ||||||| ||| | || |||||||| || ||||| |||||||| ||||| || || |||||||||||||| | | || || |
---------------------------gtatattttcagagagcattagtgtgcaattttttcattcaatctgttgttggattaacttgatgaggtactatattctatttcagCTGTGCAGCGGTGTAGATGAAAATGCTGCGGGTGCATGTGCCCAGCTTGTCTTTGCACCCATTGACGAATCTTTTGCTGATGATGCACCACTGCTACCCT
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G423337_T03 (Zea mays), 3'ss of exon 3
gtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttat-gtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT--------
|| | | ||| || | | | | | ||| |||| | | | ||| || || | | | || ||| |||||||||| || ||||||| ||||| ||| |||||||| || |||||||||||||| || ||||| || ||||| || ||||| | | || || |
-----------------------gtatacg-atcagctagcattttcactttgtcttcttttcagctgtgttgttgcaccagcctcacagcattgtattatcctttggcagttgtgcagTGGTGTGGATGAAAATGCAGCTGGTGCATGTGCACAGCTTGTGTTTGCACCCATCGATGAATCTTTTGCCGACGATGCGCCACTGCTACCCTCAGGCTTC
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 6
gtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttat-gtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
|| | | ||| || | | | | | ||| |||| | | | ||| || || | | | || ||| |||||||||| || ||||||| ||||| ||| |||||||| || |||||||||||||| || ||||| || ||||| || ||||| | | || || |
-----------------------gtatacg-atcagctagcattttcactttgtcttcttttcagctgtgttgttgcaccagcctcacagcattgtattatcctttggcagTTGTGCAGTGGTGTGGATGAAAATGCAGCTGGTGCATGTGCACAGCTTGTGTTTGCACCCATCGATGAATCTTTTGCCGACGATGCGCCACTGCTACCCT
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G30490.1 (Arabidopsis thaliana), 3'ss of exon 13
gtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
| ||| | | | ||| | || || | | ||| | | || ||| || | || || | ||||| || || || |||||||||| || ||||| | |||||||| ||||| ||||| || || ||||| ||||||||||||||||| | || || || |
--------------------gtttgctttatactaaagacactcagggattcttaaagatgagttat-tgaaattgaattcttggtttcttttttgcttttgtc---cagCTTTGTAGCGGCGTTGATGAAAATGTGGTTGGAGGTTGTGCTCAGCTTGTCTTTGCCCCAATCGATGAATCATTTGCTGATGATGCACCTTTGCTTCCTT
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G34710.1 (Arabidopsis thaliana), 3'ss of exon 12
gtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
||||| | | | ||||| ||| | | | ||| | ||| ||||| ||| | | || || ||| |||| || || || |||||||||| || ||||| | ||||| || ||||| ||||| ||||| ||||| ||||||||||||||||| | || || || |
-----------------------gtttgacttcatactttaactccaaagtttctatgctcctttgtt---ctcttcatgacattttggattcttga-ttcttgtc-tagCTTTGTAGCGGTGTTGATGAAAATGTGGTTGGAGGTTGTGCACAGCTTGTATTTGCCCCTATCGATGAATCATTTGCTGATGATGCACCTTTGCTTCCTT
upper sequence: GLYMA15G13640.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 13
-gtagtgtgtgtgaatttattaccgtttgcat--atcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgt-cttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
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gttggtttgtctataataaatatttatgggagtgattttgcttatctttttcataggtagaactttgtaagtttatcttattgacataaatatttcttaaattttctgtggcagCTATGCAGTGGGGTTGATGAGAATGCAGCTGGTGCCTGTGCTCAGCTGGTTTTTGCACCTATTGATGAATCATTTGCTGATGATGCTCCTTTGCTGCCATMapped 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|8284059|gb|BE021618.1|BE021618EST: CATTTTCTCCTGAGGACGTAGCGATGGCACGCGATATGTATCTATTGCAG CTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTG
genomic: CATTTTCTCCTGAGGACGTAGCGATGGCACGCGATATGTATCTATTGCAGgtagtgtgtg ... gatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
tcttgat putative branch site (score: 4)
ttttgttat TA-rich tract
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
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gtagtgtgtgtgaatttattaccgtttgcatatcttatataactaggaagctatagctattttgtgtgtgacacttgatgacccttttgttatgtgtcttgatgtgacagCTGTGCAGTGGAGTTGATGAAAGTGCAGTTGGGGCATGTGCTCAACTTGTGTTTGCACCTATTGATGAGTCATTTGCTGATGATGCTCTGTTACTGCCAT
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