Sequence
atgc intronic sequence ATGC exonic sequence...ctaccattaacatttgtcttgcctttcatattttgtcttttccccccctctattatttatttaaaagaaaaatgctgctactaacctatgctacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
Basic information
species | Glycine max |
transcript | GLYMA10G32320.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g56670.2 (Oryza sativa), 3'ss of exon 14
--ctaccattaacatttgtcttgcctttcatattttgtct-tttccccccctctattatttatttaaaagaaaaatgctgctactaacctatgctacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
| | | || | | | || | || | ||| | ||||| | |||| | |||| || | | || ||||||| ||||| |||||||| |||||||| |||| || ||||| ||| |||| ||||||||||| || ||
tctttgcctaaataaccagcaatgcaacaatttactgcatattttcgttgagctattctctatt-gttggttaaatctaattaattattagcgcatt--ccagGTCAAATATCTCTGGCTTCTTTTTGATTTAGCTGCAGGCCCTGATAATATTGTTGAAAATGGGCCATATAA
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G173868_T02 (Zea mays), 3'ss of exon 13
--ctaccattaacatttgtcttgcctttcatattttgtcttt-tccccccctctattatttatt---taaaagaaaaatgctgctactaacctatgctacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
||| | | | | | ||| | | | | || || |||||||| || |||| |||| | || | | |||||||||||| |||||||| |||||||| |||| || ||||||||| |||| |||||||| || || ||
atctagaagtgcactcttttttgggacagagggcgtaaatacatgccattttcctttatttatcctctattgctgaaatctaactacctgcacatacca------gGTCAAGTATCTCTGGCTTCTTTTTGATTTAGCTGCTGGCCCTGACAATATTGTTGAAAATGGACCATATAA
upper sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 15
-ctaccattaacatttgtcttgcctttcatattttgtcttttccccccctc-tattatttatttaaaagaaaaatgctgctactaacctatgc-tacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
| || ||||||| || || | | || ||| ||| | |||| | ||| | || | | |||| | | |||||||||||||| |||||||||| ||||||||||||| |||| | ||||| ||||| ||||||||||| |||||
tgtctttctagcatttgttttttgattggcttgtgctccttttatttccttatgttatctttttccttttcat---tgattattgaactatccacattattagGTCAAGTATTTGTGGCTTCTTTTTGATTTGGCTGCGGGTTCGGACAACCTTGTTGAAAATGGGCCATACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccctctattatttatttaaaagaaaaatgctgctactaacctatgctacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
tactaac putative branch site (score: 0)
tattatttatttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctaccattaacatttgtcttgcctttcatattttgtcttttccccccctctattatttatttaaaagaaaaatgctgctactaacctatgctacaattagGTCAAGTATCTGTGGCTTCTGTTTGATTTGGCTGTGGGTCCTGACAATCTTGTGGAAAATGGGCCTTACAA
- -ccattaa
- - - - - - - tgtcttg
- - - - - - - - - - -cctttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actaacc