Sequence
atgc intronic sequence ATGC exonic sequencegtattgaatttacaatcttagcaattttgatgagcaatagaatagagcatcacattaatggatgaaaattaatcaaaatgcctaactaactagaactgatttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
Basic information
species | Glycine max |
transcript | GLYMA20G31280.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31280.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G48100.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattgaatttacaatcttagcaattttgatgagcaatagaatagagcatcacattaatggatgaaaattaatcaaaatgcctaactaactagaactgattta-tggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
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-----------gtagtctaaagaccatt--tgtattataccacttacaagcatat-aataaattaagacgatgatgattgaataagtgtatatgtatatttaaacacacagGCATGGTGTAGAGCAGCCGAGAAATCCGTGGTCAGATGGTCCTGAATACATCACACAATGCCCGATTCGACCCGGGTCAGATTTTTTGTACAAAGTCATA
upper sequence: GLYMA20G31280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0122g00420.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------gtattgaatt--tacaatcttagcaattttgatgagcaatagaatagagcatcacattaatggatgaaaattaatcaaaatgcctaactaactagaactgatttatgg----acagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
|| || ||| || ||| | ||||| | |||| | ||| || || | || || | || | | | || | |||| |||||||||||| || ||||||| | ||||||||||||||||||| ||| ||||| |||||||| || ||||| || | ||| | || ||| | ||
gtatggctcaatttaccaaggctagctagaggtggtggtgtattaatataatttgcttcattttca-acacaatgatgctaatgctcatccatatc-attataaggcatagtatagctccagagagcatgacaagtatatgcttttgcagGCATGGAGTCAAAATGCCAAGGTACCCATGGACAGATGGTCCTGAATATATCACACAGTGCCCAATTCAACCAGGTTCAAAATTTACCCAAAAGCTCATA
upper sequence: GLYMA20G31280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0122g00390.t01 (Vitis vinifera), 3'ss of exon 2
-----------gtattgaatttacaatcttagcaat-------tttgatgagcaatagaatag--agcatcacattaatggat----gaaaattaatcaaaatgcctaactaactagaactg----atttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
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gtatggcactatttgtgtatttacagaatttgagatagatatacttcattatcactctatcagtaactagcaaactgatatatatcggagggctaaaccgagcatacaagtggtgataataagggaatgtttttgcagGCATGGAGTGAATCAGCTAAGATATCCATGGTCTGATGGTCCTGAGTATATCACCCAGTGCCCTATTCAACCGGGCGGAAAGTTCAGCCAAAAGCTCATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatggatgaaaattaatcaaaatgcctaactaactagaactgatttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
atgaaaattaatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgaatttacaatcttagcaattttgatgagcaatagaatagagcatcacattaatggatgaaaattaatcaaaatgcctaactaactagaactgatttatggacagGCATGGAGTGAAGCAGCCAAGGAATCCATGGACAGATGGTCCTGCATACATCACTCAGTGCCCCATACAACCTGGAAGGAGATTCAGACAGAAGTTGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT