Sequence
atgc intronic sequence ATGC exonic sequence...tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaaccctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
Basic information
species | Glycine max |
transcript | GLYMA09G28890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G28890.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G448241_T02 (Zea mays), 3'ss of exon 6
tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaaccctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
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-------gtaccgaatgcaccttctgctctgagcatattcttgctttggtaaagttgtttt-----gattgtaaaacatggttcactgtt-------cagGCTTCGCTTCGAGATAGCTTAGTGCTTCCGAATTGTGAAAGCATCTCCATGCCGTGGATGTTGGCTGAAAAGGATGATTGGGTACCTCGCAAGGATGCTC
upper sequence: GLYMA09G28890.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G73200.1 (Arabidopsis thaliana), 3'ss of exon 6
tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaaccctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
| | ||| || | | |||| | |||| ||| ||| || || || ||| | ||| ||| |||||| | ||||| || || | |||||||| |||||||||||| | |||||| |||||| ||| ||||||||||||||||| | | ||||||||
----------gtaagctgttgcgttttttttt---tgtttatgaaggaattcc--taactaaccataagacaaaaaacaaatt-----------ctgcagACGGCGATACGAGACGTCATGGTGCTCCCCAATTGTGAAAGCGTTACCATTCCTTGGATGACAGCTGAAAAGGATGATTGGGTCGAACGCAATGTCGCTC
upper sequence: GLYMA09G28890.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv16s0039g00150.t01 (Vitis vinifera), 3'ss of exon 2
tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaac---cctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
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-aagctgcatcttttcatttgccaagagcttggaaaaatt--gaatttgtcagaatgaaaattgccaaaggggtgtatgctaatgctagtgtcctttctacagGCAGCCATCCGGGATACCCTAGTACTTCCAAACTGTGAAAGTGTATGCATACCATGGATGTTAGCAGAAAAGGATGACTGGGTTCAACGTAATGTTGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgattagaatatctttccctaaaccctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
ttttatttttctcctg CT-rich tract
taaacttgattttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattctagtactcaactgaagccctctcttttgtatctttaagaaatgattagaatatctttccctaaaccctaaacttgattttatttttctcctgcagGCAGCGATCCGGGAAACTTTAGTGCTCCCAAATTGTGAAAGCATATGCATTCCATGGATGCTAGCCGAAAAGGATGATTGGGTTCCTAGGAGTGTCGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - caactga
- - - - - - - - - - -ccctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctaaa