Sequence
atgc intronic sequence ATGC exonic sequencegtatatgtcttaggcgatgaatttctgatattcgttttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
Basic information
species | Glycine max |
transcript | GLYMA12G31330.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G074262_T01 (Zea mays), 3'ss of exon 10
---------gtatatgtcttaggcgatgaatttctgatattcgt-tttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
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gtaatagtttcttacatataaagagatgcttaaat-atattaatattagatgcctcttttaactggtgtctttg--cagGATGTTGTATGTATGAGATGGCTGCTCATCGACCTGCTTTCAAGGCTTTT
upper sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatatgt---cttaggcgatg---aatttctgatattcgttttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
|||| ||| | | | || | ||| ||| || ||| | | |||| | | || |||| ||||||||||||||||||||||| |||| || ||||| |||||||||
gtatgtgtaaccctgtcctttgtaaagtttaagatttttgttattgtgaaactaagcctgtatgctggtgaacagGCTGTTGTATATATGAGATGGCTGCGTATCGACCTGCTTTCAAAGCTTTT
upper sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 9
gtatatgtcttagg------cgatga-atttctg-atattcgttttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
|||| ||| || | ||| |||| || || | | || | |||||| || | | |||||||| ||||| ||||||||||||||||||||||| || ||||| ||||||
gtatgtgttttcatagtgtctggtgatatttatggatctgcagttgtttgtggctaaattttgcattgct-gatcagGTTGCTGTATGTATGAGATGGCTGCTCATCGCCCTGCATTTAAGGCTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatgaatttctgatattcgttttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
cgctaaa putative branch site (score: 3)
cattttttttgttc putative PPT
attttttttgttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgtcttaggcgatgaatttctgatattcgttttgctaccgctaaaaggcattttttttgttcagGTTGTTGTATATATGAGATGGCTGCTCATCGCCCAGCTTTTAAAGCTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT