Sequence
atgc intronic sequence ATGC exonic sequence...gactatgttagttgattcttagtgttagtaattaatttattgattgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
Basic information
species | Glycine max |
transcript | GLYMA10G41430.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 9
gactatgttagttgattcttagtgttagtaattaatt--tattgattgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
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-gctatgttctgt-atttctagtgcttcgaattatttgttcttgatctttatattgttagcctttcccgtgagtgcatatttcaccttttgcttctccatagGTAAAAAGGACGCTAGGCCAGTTCACACCAGCACAGTGGGACAAAGATGAGTGGTACCCTCTGCTTGGCCCTTGGAGATTCATCCAGGTGCTGAGCCTAT
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 9
-gactatgttagttgattcttagtgttagtaa-ttaatttattgattgctaagtggactgaatgtgacttgagtgctctttgcta-tggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
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gtgcttcagaaactaatcttcagcctttggaacttgatttaac-attggtagctgaccttttttt--tcagagtttatttatttagcattttcttctccttagGTAAAAAGGATGCTGGGACAGTTCACACCAGCACAGTGGGACAAGGACGAGTGGCAACCTACGCTGGGTCCTTGGAGATTCATCCAGGTGCTGAGCCTTT
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G15110.2 (Arabidopsis thaliana), 3'ss of exon 10
gactatgttagttgattcttagtgttagtaattaatttattgattgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
|| ||| ||| | || | | || | | ||| | | || | || | |||| ||| || ||| |||||||| | ||| | || || ||||||||||| || ||||||||||||||||||||||| |||| || ||||||||||| |||||||| || | |||||
------gtaggtttgttc--aaccttgagagtgcatacacatggtcctagccgttgtacatccaatgagaat----tttg-tatattttttc------agGTGAAAAGGACACTGGGGCAGTTCACACCAGCTCACTGGGACAAAGACGAGTGGCATCCGCTGCAGGGACCTTGGCGTTTTATTCAAGTACTCACTCTTT
upper sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 10
gactatgttagttgattcttagtgttagtaatt--aatttattg-attgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcg--ttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
| | | || ||| | | |||| ||| | ||| |||| | | || | || | ||| | || ||| | | || |||||||||||||||||||| ||||| || |||||||||||||||||||| ||||||||||| |||||||||| ||||||||||||||||| || |||||||
----tggcaaatagacccttgatctgcaaaatttcaatgtgttgcattggcatgaagaat-aacggataatgattctagattactaccatctactggtttcccagGTGAAACGAACATTAGGACAATTTACGCCAGCACAGTGGGACAAAGATGAGTGGCATCCCTTGCTTGGTCCATGGCGTTTCATTCAAGTTCTCAGTCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaagtggactgaatgtgacttgagtgctctttgctatggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
ttcttcgtt CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gactatgttagttgattcttagtgttagtaattaatttattgattgctaagtggactgaatgtgacttgagtgctctttgctatggttcttcgttatcagGTGAAACGAACATTAGGCCAATTCACACCAGCACAGTGGGACAAAGACGAGTGGCATCCACTGCTTGGTCCTTGGCGTTTCATTCAAGTGCTTAGTCTTT
- - - - - - - - -cttagtg
- - - - - - - - - - - - - - - - - - - - tgattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgagtg