Sequence
atgc intronic sequence ATGC exonic sequence...ggtacgaagttttatgaagttgctaaaccagttgctaggaaaatttacctaccagtagagtttcaatcatgttctaataatttttttgtataaaaaacagCATGCATCTGGCAAGAAATTTCAGGAGATTCTTGAAGAAGCAATAGTTCGCCCCCTTCATATTGAAGGCGAGTTATATGTAGGGATTCCACCAG
Basic information
species | Glycine max |
transcript | GLYMA17G24440.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G24440.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 18
-ggtacgaagttttatgaagttgctaaaccagttgctaggaaaatttacctaccagtag---agtttcaatcatgttctaataatttttttgtataaaaaacagCATGCATCTGGCAAGAAATTTCAGGAGATTCTTGAAGAAGCAATAGTTCGCCCCCTTCATATTGAAGGCGAGTTATATGTAGGGATTCCACCAG
| || | | || || | || | || | || | ||| | ||||| | | ||| || | || | || || ||||||||||||| ||||| ||||| |||||||| ||||| || || ||||| || ||||| ||||| || ||||| ||||| || ||||||||||
tatccctttgtgtcccgtaggccgtagcttaatta-tgggggtttgtaagtcgttgtaactcaatttca--cgaatcttaaccatggtatt-tggcaataatagCATGCATCTGGGAAGAAGTTTCAAGAGATTCTAGAAGAGGCTATTGTTCGTCCTCTTCACATTGAGGGGGAGTTGTATGTTGGCATTCCACCAG
upper sequence: GLYMA17G24440.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 16
-ggtacgaa--gttttatgaagtt---gctaaaccagttgctaggaaaatttacctaccagtagagtttcaatcatgttctaataatttttttgtataaaaaacagCATGCATCTGGCAAGAAATTTCAGGAGATTCTTGAAGAAGCAATAGTTCGCCCCCTTCATATTGAAGGCGAGTTATATGTAGGGATTCCACCAG
|||| |||||| || | | | || | | | || || | |||||| |||||||||||||| |||| |||| |||||||| ||||| |||||||| |||||||| || ||||||||| | |||||||||| || |||||||||||| ||||||| || ||||| ||||
gtacacgattcattttatattattcataccatgtttgatgttcttcccctatttctcttagcctattttcaac--tgttctaataatttctttggataa----cagCATGCTTCTGGGAAGAAATTCCAGGAGATACTAGAAGAAGCATTTATTCGCCCCCTCCAGATTGAAGGCGAGCTATATGTTGGAATTCCTCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctaccagtagagtttcaatcatgttctaataatttttttgtataaaaaacagCATGCATCTGGCAAGAAATTTCAGGAGATTCTTGAAGAAGCAATAGTTCGCCCCCTTCATATTGAAGGCGAGTTATATGTAGGGATTCCACCAG
ttctaat putative branch site (score: 2)
tttcaatcatgttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtacgaagttttatgaagttgctaaaccagttgctaggaaaatttacctaccagtagagtttcaatcatgttctaataatttttttgtataaaaaacagCATGCATCTGGCAAGAAATTTCAGGAGATTCTTGAAGAAGCAATAGTTCGCCCCCTTCATATTGAAGGCGAGTTATATGTAGGGATTCCACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - tatgaag
- - - - - - - - - gttgcta
- - - - - - - - - - - ctaaacc
- - - - - - - - - - - - - - - - - - - - - - - -cctacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgttc