Sequence
atgc intronic sequence ATGC exonic sequence...tgaattaccaaaccttctccttatttttgttgctatatatatagttatttgtatgtattcaaatgtaatctgatgtagtgaaacttttgagctgcaccagAGCCTGTTTCGCGGCACATCGAGGATCAGGGACTTGAATTTCTTCAGTTTGCTTTCCGCTGGTTCAACTGTCTTCTCATCCGTGAG
Basic information
species | Glycine max |
transcript | GLYMA12G05350.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G142806_T01 (Zea mays), 3'ss of exon 8
tgaattaccaaaccttctccttatttttgttgctatatatatagttatttgt-atgtattcaaatgtaatctgatgtagtgaaacttttga-gctgcac-cagAGCCTGTTTCGCGGCACATCGAGGATCAGGGACTTGAATTTCTTCAGTTTGCTTTCCGCTGGTTCAACTGTCTTCTCATCCGTGAG
| | | || ||| | | | | || || || | | | | | | | | |||| | | | ||||| | || | |||| |||||||| |||||| || || || ||| | || |||||||||||||| ||||||||||||||||| ||||| || || |||
--cgtcatgggatctgctcataagactagagttccta-attcttccatatatcagggaaaaacacttcatcttttacctcgtattttttgctgttgtatgcagAACCTGTTTCCAAGCACATTGAAGAGCAAGGATTAGAGTTTCTTCAGTTTGCCTTCCGCTGGTTCAACTGCCTTCTGATACGAGAG
upper sequence: GLYMA12G05350.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0094g00070.t01 (Vitis vinifera), 3'ss of exon 7
tgaattaccaaaccttctccttatttttgttgctatatat--atagttatttgtatgtattcaaatgtaatctgatgtagtgaaacttttgagctgcaccagAGCCTGTTTCGCGGCACATCGAGGATCAGGGACTTGAATTTCTTCAGTTTGCTTTCCGCTGGTTCAACTGTCTTCTCATCCGTGAG
|| || || | |||| ||| | | || ||| || || | || | | | | | | || | |||||| |||||||||| |||||||| ||||||| ||||| || || ||||| |||||||| ||||||||||| ||||||||||||||||| || || |||
atttttgtggaatctatttattatcttttctcccatttattgatgcccatatatagtcctgccatgcccacttcaagtgtctga--ttttgaactgcaccagAACCTGTTTCAAGGCACATGGAGGAGCAAGGGCTTGAGTTTCTTCAATTTGCTTTCCGTTGGTTCAACTGTCTTCTAATACGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttgtatgtattcaaatgtaatctgatgtagtgaaacttttgagctgcaccagAGCCTGTTTCGCGGCACATCGAGGATCAGGGACTTGAATTTCTTCAGTTTGCTTTCCGCTGGTTCAACTGTCTTCTCATCCGTGAG
atctgat putative branch site (score: 4)
tattcaaatgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaattaccaaaccttctccttatttttgttgctatatatatagttatttgtatgtattcaaatgtaatctgatgtagtgaaacttttgagctgcaccagAGCCTGTTTCGCGGCACATCGAGGATCAGGGACTTGAATTTCTTCAGTTTGCTTTCCGCTGGTTCAACTGTCTTCTCATCCGTGAG
- - - accaaac
- - - - - - -cttctcc
- - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgatg