Sequence
atgc intronic sequence ATGC exonic sequencegtaaattttctttcttgtatagttggaagcccaatactttcaattggatgaatgcaattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
Basic information
species | Glycine max |
transcript | GLYMA13G25010.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g42600.1 (Oryza sativa), 3'ss of exon 4
gtaaattttctttcttgtatagttggaagcccaatactttcaattggatgaatgcaattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
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--------------------------gtaacggtcatgctccat---accaatgcaaatagtatcttcttgcttggacactaaagaatc---tccttcaactttacagGCAAACTGTTCTATCCCAGTTCTCTGTGTCGCCAGGAATGTTGCATGCAATGTTAGAGGGGGCTTCTTTAA
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G120373_T01 (Zea mays), 3'ss of exon 4
gtaaattttctttcttgtatagttggaagcccaatactttcaattggatgaatgcaattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
|| ||| |||| | | ||| ||| | | | | || ||||||| | || || || | | ||||||| | ||||||| ||||||||||| || ||||| ||||| ||||||||||||||||| ||||| ||
----------------gtgatgttcatggcccg-----------tataccaatacaaatatatcatattgtcactaacagga-----tttctcctttccaccacctagGCAAATTGTTCTATCCCAGTTCTGTGTGTAGCCAGAAACGTTGCATGCAATGTTAGGGGTGGTTTCTTCAA
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 4
------gtaaattttctttcttgtatagttggaagcc-caatactttcaattggatgaatgc-------aattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
| | ||| || | ||||| |||| ||||||| | || | |||| |||| || ||| || | || || ||| || | | || || | ||| |||||| ||| |||| | || ||||||||||||||||||||||| |||||||| || ||||| || || ||
gtatgcaccattgcacttggttatgcagttgaaagcttcaatactgttaaataataacatgctttttaagatttaaccatttctttgatgatgtgcactcatcataact-cttcttttgaagGCAAATAATGCTATTTCCGTCCTGTGTGTTGCAAGAAATGTTGCATGCAATGTCAGAGGTGGTTTTTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
tttgtctt CT-rich tract
ttttttcactaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattttctttcttgtatagttggaagcccaatactttcaattggatgaatgcaattttgcccttttttcactaatatgaactgattaaatctgtttgtcttgtagGCAAGCAATACTATCCCTGTTCTGTGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA