Sequence
atgc intronic sequence ATGC exonic sequencegttcctataggatatggatctcctttgacccttactgatacttcaaacatgattaaaaagggacaaagGGGGATGCTACAGCTCTGAGGCCAACTTTAATGGCAGCTGTACCAGCAATTCTTGACCGTGTTCGTGATGGAGTGTTCAAGAAG
Basic information
species | Glycine max |
transcript | GLYMA14G23710.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G23710.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g07110.1 (Oryza sativa), 3'ss of exon 5
---gttcctataggatatggatctcctttgacccttactgatacttcaaacatgattaaaaagggacaaagG--GGGATGCTACAGCTCTGAGGCCAACTTTAATGGCAGCTGTACCAGCAAT--TCTTGACCGTGTTCGTGATGGAGTGTTCAAGAAG------------------
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gtgactctaaaatagcatctatttacatcatcggttacttaagattaataactcactgtatggatttttttttcagGCACTCATAGCTGCTGTTGGGGCTTCCATAGGATATGGATCACCCTTGACCCTGACTG-ATACATCAAACAAAATAAAAAAGGGAACACTGGGTGATGCTT
upper sequence: GLYMA14G23710.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G77590.1 (Arabidopsis thaliana), 3'ss of exon 5
gttcctataggatatggatctcctttgacccttactgatacttcaaacatgattaaaaagggacaaagGGGGATGCTACAGCTCTGAGGCCAACT--TTAATGGCAGCTGTACCAGCAATTCTTGACCGTGTTCG----TGATGGAGTGTTCAAGAAG-----------------------------
|| || | | ||| | || | | || || | | | | | | || | | | | | || | | || | | || | | | | | | | | | | ||| ||||| |
gtatcttaaaagttcattactcaatgcgtttatatagcagttccacacttcagagtatttgaatgcggcctaattccattgttgtagAGCGTAATGGCTACTATTGGGAGTGCTATTGGATATGGGTCTCCCTTGACGCTAACGGATACTTCAAACAAGATAAAAAAGGGTACAAAAGGAGATGTCA
upper sequence: GLYMA14G23710.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g02810.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------------gttcctataggatatggatctcctttgacccttactgatacttcaaacatgattaaaaagggaca--aagGGGGATGCTACAGCTCTGAGGCCAACTTTAATGGCAGCTGTACCAGCAATTC--TTGACCGTGTTCGTGATGGAGTGTTCAAGAAG-----------------------------
| || ||| | | || | | | | | | | | | || || || | || | | ||| | || | || | || || | || || | || | | | || | | | || ||||| ||
gtatggacaacctttctaaactagttgtatgtcatagcttgagtagtttgatgggaattttgttcccatcaatgatcaattttcccttcagcagtgttttaacgaaactctatgttatatgttgtagAACGTAG--TAGCTGCTATTGGAGGTGCAATAGGGTATGGATCCCCTTTGACCCTCACTGATACATCAAGCAGGATAAAAAGAGGAACAAAGGGGGATGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggatctcctttgacccttactgatacttcaaacatgattaaaaagggacaaagGGGGATGCTACAGCTCTGAGGCCAACTTTAATGGCAGCTGTACCAGCAATTCTTGACCGTGTTCGTGATGGAGTGTTCAAGAAG
tactgat putative branch site (score: 2)
aaacatgattaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcctataggatatggatctcctttgacccttactgatacttcaaacatgattaaaaagggacaaagGGGGATGCTACAGCTCTGAGGCCAACTTTAATGGCAGCTGTACCAGCAATTCTTGACCGTGTTCGTGATGGAGTGTTCAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG