Sequence
atgc intronic sequence ATGC exonic sequencegtaaattttctttcttgtatagttggaagcccaattctttcaattgcacgaatggaattttgtcttttttcactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
Basic information
species | Glycine max |
transcript | GLYMA07G31430.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g42600.1 (Oryza sativa), 3'ss of exon 4
gtaaattttctttcttgtatagttggaagcccaattctttcaattgcacgaatggaattttgtctttttt-cactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
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---------------------gtaacggtcatgctccataccaatgca--aatagtatcttcttgcttggacactaaagaatctccttcaactt--------tacagGCAAACTGTTCTATCCCAGTTCTCTGTGTCGCCAGGAATGTTGCATGCAATGTTAGAGGGGGCTTCTTTAA
upper sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G120373_T01 (Zea mays), 3'ss of exon 4
gtaaattttctttcttgtatagttggaagcccaattctttcaattgcacgaatggaattttgtc-ttttttcactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
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----------------gtgatgttcatggcccg-----------tataccaatacaaatatatcatattgtcactaacaggatttct----cctttccaccacctagGCAAATTGTTCTATCCCAGTTCTGTGTGTAGCCAGAAACGTTGCATGCAATGTTAGGGGTGGTTTCTTCAA
upper sequence: GLYMA07G31430.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 4
------gtaaattttctttcttgtatagttggaagcc-caattctttcaattgcacgaatg-------gaattttgtc--ttttttcactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
| | ||| || | ||||| |||| |||| || | || | ||| |||| | || ||| | || || ||| || | | || || | ||| |||||| ||| |||| | ||||| |||||||||||||||||||| |||||||| || ||||| || || ||
gtatgcaccattgcacttggttatgcagttgaaagcttcaatactgttaaataataacatgctttttaagatttaaccatttctttgatgatgtgcactcatcataact-cttcttttgaagGCAAATAATGCTATTTCCGTCCTGTGTGTTGCAAGAAATGTTGCATGCAATGTCAGAGGTGGTTTTTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggaattttgtcttttttcactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
aactgat putative branch site (score: 3)
tttgtctt putative PPT
attttgtctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattttctttcttgtatagttggaagcccaattctttcaattgcacgaatggaattttgtcttttttcactatatgaactgattaaacctgtttgtcttgtagGCAAGCAATACTATCCCTGTCCTATGTGTTGCAAGAAATGTTGCTTGCAATGTTAGGGGTGGCTTCTTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA