Sequence
atgc intronic sequence ATGC exonic sequence...cacaattatgtatgcttaaattatgaagttatcaaattagatgagcggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
Basic information
species | Glycine max |
transcript | GLYMA03G01200.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01200.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G00500.1 (Arabidopsis thaliana), 3'ss of exon 4
cacaattatg---tatgcttaaattatgaagttatcaaattagatgagcggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
| |||| |||| ||| | ||| | | |||| | | | | | || ||| | | | || | | | | || |||||||| ||||||||| || |||||||| || || ||||||||||| |||||||| | ||||| || || |||||||| | || |||||||||
-gtatttatactttatgtttac-tcatgt-gcttcaaaatcgttttcgtcaactcgaagacacgggtttcaa-agtgaaaaccatg---cccttggtatacagATTAGGAAGATATCCACCTGTTGTGAGAACAGCTGTCCCAGTTGATGGGAGATTTGAGCAGATTGTTCTCTCCTGTAATGCAACAGCGGATCATGCCATC
upper sequence: GLYMA03G01200.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02650.t01 (Vitis vinifera), 3'ss of exon 3
cacaattatgtatgcttaaattatgaagttat--caaattagatgagcggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
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aatgtaaatttatcagtcagctggaatactatgtcatggtaggagggattaatataaccattggatgg--gtgcttcatgtagtttatttttcctattgcagGTTTGGAAGATTTCCCCCAGTTGTGAGGACAGCAGTACCTGTGGATGGGAGGTTTGAGCACATAGTACTTTCTTGCAATGTGACTTCGGACCATGCCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
ttctgat putative branch site (score: 3)
tctcttct CT-rich tract
aataatttggattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacaattatgtatgcttaaattatgaagttatcaaattagatgagcggaatattatctgtatgtagcaataatttggattatagtctcttctgattgtagGATAGGAAGACTTCCACCTGTCGTTAGAACAGCAGTACCTGTTGATGGGAGGTTTGAGCATTTAGTTCTTTCTTGCAATGCAACTTCTGACCATGCCATC
- - - - -gtatgct
- - - - - - - - - - -tatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt