Sequence
atgc intronic sequence ATGC exonic sequence...atatcttataaaaaacaactgatattttgaaatgtagggatataatattatttgtatgtctcctaattgaatctgatactgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
Basic information
species | Glycine max |
transcript | GLYMA13G42180.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os09g34040.1 (Oryza sativa), 3'ss of exon 7
atatcttataaaaaacaactgatattttgaaatgtagggatataatattatttgta-tgtctcctaattgaa---tctgata--ctgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
| || | | || | ||| | | | | | | || | || | | |||| | | | | ||| || || | | |||| ||||| ||||| || |||||||| ||||||||||| |||||||| ||||| || || |||||||| |||||| | || || |||
------cagaatagttatgtgttgtttgtagaagaaaaaaagaacagttttgcctagtacattaaaattccaatgtttaaccatctggcatcttctggttatacagAACCTGTGTCAAAGCACATGGAGGAACAAGGATTGGACTTTCTTCAGTTTGCGTTTCGTTGGTTCAATTGTCTTATGATTCGTGAG
upper sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G142806_T01 (Zea mays), 3'ss of exon 8
---------atat-cttataaaa----aacaactgatattttgaaatgtagggatataatattatttgtatgtctcctaattgaatctgatactgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
|| | || |||| | | || || || | || | || | || | | | | | | ||| | || | | ||| || | | |||| |||||||| || || || || ||||||||||| || |||||||| ||||| ||||||||||||||||| ||||| || || |||
cgtcatgggatctgctcataagactagagttcctaattcttccatatatcagggaaaaacact--tcatcttttacctcgt---attttttgctg---ttgtatg------cagAACCTGTTTCCAAGCACATTGAAGAGCAAGGATTAGAGTTTCTTCAGTTTGCCTTCCGCTGGTTCAACTGCCTTCTGATACGAGAG
upper sequence: GLYMA13G42180.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 7
atatcttataaaaaacaactgatattttgaaatgtagggatataatattatttgtatgtctccta-attgaatctgatactgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
|| | || | || | | ||| || | || | || | || || | | | | | | ||||||| | | ||||| |||||||||| || |||||||||||||| | || |||||||||||||||||||| |||||||||||||||||||| || |||
at-ttttgtggaatctatttattatcttttctcccatttattgatgcccatatatagtcctgccatgcccacttcaagtgtctgattttgaactgcaccagAACCTGTTTCAAGGCACATGGAGGAGCAAGGGCTTGAGTTTCTTCAATTTGCTTTCCGTTGGTTCAACTGTCTTCTAATACGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatttgtatgtctcctaattgaatctgatactgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
ttccccc CT-rich tract
taattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatcttataaaaaacaactgatattttgaaatgtagggatataatattatttgtatgtctcctaattgaatctgatactgaaattttgagttcccccagATCCTGTTTCAAACCATATGGAGGAGCAAGGATTGGAATTTCTTCAATTTGCTTTCCGCTGGTTCAACTGTCTTCTAATCCGCGAG
- - - - taaaaaa
- - - - - - - -caactga
- - - - - - - - - - - - - - - aatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatactg