Sequence
atgc intronic sequence ATGC exonic sequence...cttggaggagtactcttgcttactgttctagagtaccctgccaaagctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
Basic information
species | Glycine max |
transcript | GLYMA07G39690.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G456690_T01 (Zea mays), 3'ss of exon 8
cttggaggagtactcttgcttactgttctagagtaccctgccaa---agctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
| | | |||| | || | | | | | ||| ||| | | | | ||| | | ||| ||||||||||||| ||| | || ||||| ||||| || |||||||| ||| ||||||||||||| ||||| | || |||| | || |||||||| ||||| |
-gtaacctcattcccttgatggatggcagaaaatcgttaattattttacctagctggagtgaatatgtgtataacaattagcaaatgctgcgtgtgcttgcagGTGGAGGGCAAACCTGTTTTGAAGTTTGCACTTTGTTATGGATTCAGGAACCTGCAGAATATTGTTAGGAAGATTAAGATGGGAAAATGTGAATATCACT
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G171998_T01 (Zea mays), 3'ss of exon 8
cttggaggagtactcttgcttactgttctagagtaccctgccaaagctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
| | | | |||| | | | | | | | ||| || | | | | ||| | | ||| |||||||||||| ||| | || ||||| ||||| || |||||||| ||| ||||||||||||| |||| | || |||| | || |||||||| || || |
-gtaaactcattcccttgatgatcatggaaaaccagtaattttcacctagcttgagtgattgtatgtataacaattagcaaatgctgcgtgtgctagcagGTGGAGGGCAAACCTGTTTTGAAGTTTGCACTTTGTTATGGATTCAGGAACCTGCAGAATGTTGTTAGGAAGATTAAGATGGGAAAATGTGAATACCACT
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G16440.1 (Arabidopsis thaliana), 3'ss of exon 7
-----cttggaggagtactcttgcttactgttctagagtaccctgccaaagctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
| || ||| | || ||| | | | || || ||| || || || ||| || | | | || | ||| || || |||| || ||||||||||| |||||||| || ||||| ||||||| |||||| ||||| ||||| || | | | |||| | ||||| |||||||| |
gtaagttcttagccagactatga---acagttttgaaattttctctca---ttaatccccctcggatttgt-ctcatgttcgtcatctt-----tttct-tgaagTTGGAAGGTAAAACAGTGTTAAAATTTGCGCTGTGTTACGGTTTCCAGAACCTCCAGAATATTGTTCGGAGAGTGAAAACGCGCAAATGCGATTATCAGTMapped 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|7796277|gb|AW781674.1|AW781674EST: TGACCTTCAGAAACATCAGGAATTCAGATTTTCAGGAAGTTACTCTGGAG GTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAAC
genomic: TGACCTTCAGAAACATCAGGAATTCAGATTTTCAGGAAGTTACTCTGGAGgcaagttctt ... gtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
tgcttac putative branch site (score: 2)
tctgtct putative PPT
ttttacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttggaggagtactcttgcttactgttctagagtaccctgccaaagctaagaggacttagaagagtactcttgcttaccgttttacatctgtctgtgcagGTGGAGGGAAAAACAGTGTTGAAATTTGCTCTCTGTTATGGTTTCCGGAACCTGCAGAACATTGTACGAAAACTTAAAAATGGGAAATGTGATTATCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- -ggaggag
- - - - - - ctcttgc
- - - - - - - - - - - - - - - - - -ccctgcc