Sequence
atgc intronic sequence ATGC exonic sequencegtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
Basic information
species | Glycine max |
transcript | GLYMA18G47320.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G61540.1 (Arabidopsis thaliana), 3'ss of exon 9
gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
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----------------------------------------------------------------------gtctgtttcagaatcttgatcgttctttcatatggatcaaataatttta----ctctgtttcacatgatttc-tttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAA
upper sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 9
gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
|||| | | || | | | ||| || || | || | ||| | | | | |||| ||| ||| || ||||| |||| |||||||||||||||||||| || ||||| |||||||| |||| || || || || |||| ||||||||||||||||| |||||||| ||||| |||||||
---------------------------------gttccaaaccggaggggtactttgagaaatgtggccca-------gcatgagcttactggacaatcctttta----gtgtctattgg----tttatttacttt----caatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
upper sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S241_28V6.1 (Physcomitrella patens), 3'ss of exon 11
gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttt-tgttaa-ctttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
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----gttagtcagtagataatgacggtttcataacaga-aaccctgtgagttttgttctttgtgtcgttctaattatttt-caaaattgttaatcttcat-atttatgtttctatctagcgttctaacattaagctcctatgccatgtgttcagGTACCCGTTGCCGCAGCTGTTTATTACGAAGACTTGTATGTGAACGTTACCCTTTCGGAAGAAACTGCAGCCCAGATTCAAGATATCAGGCTTTGGGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
ttttttgttaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA