Sequence
atgc intronic sequence ATGC exonic sequencegtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
Basic information
species | Glycine max |
transcript | GLYMA17G07320.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g54510.2 (Oryza sativa), 3'ss of exon 5
gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgt-atttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
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-----------------------------------------------------------------gtattacttgtttaatcaaagaacactatgattcttttattctcaaatatccaaattctaaatta-aagcaactgcacagGACAATTGATCGCCGTAAAAGAGTTATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCATGGGAAGAATATAGTTCATTTTGATCTAAAGTGT
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G052658_T01 (Zea mays), 3'ss of exon 4
gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
| ||| | || | | | | | | | | || || || | | | | | | | ||| || ||| ||||| ||||| || ||||| | || |||||||||||||||||||||| ||||||||||||||||| || || || || |||||||| ||||||||
---------------------------------------------------------gtact-atatattgaatccaagaaataagaatatt--tgatcttttatttctcctgtatcgaactctaaattaaagcgcttgtgcagGACAATTGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAGTATTTGCATGGGAAGAATATAGTCCATTTTGACCTGAAATGT
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 3
gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
||||| | | | | | | | | ||| || | ||||| | | | | | |||| || ||| ||||||||||| || ||||| | || |||||||||||||||||||||| ||||| |||||||| || || || || || |||||||| |||| |||
---------------------------------------------------------gcactacattttctaaagcaagaaataagaatatatttggtct-----tctatttctcctt--tatcaaaataaagcacttgtgcagGACAATAGATCGCCGGAAGAGAGTAATATTAGCCATGGATGCTGCATTTGGCATGGAATATTTGCACGGGAAGAATATAGTCCATTTTGACCTGAAGTGT
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G57610.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgt-ttattctgagcaatttaac-agAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
| | || | | || | | ||| | || | | |||| | |||| | | || | | | ||||| || |||||||| || || ||||| |||||||||||| ||||||||||||||||||||||||| ||||| |||||||| ||||| |||||||| |||
---------------------------------------------------------gtaaaaaagt-ttcacctattcatgcattatatactatt--ttcctagagtatccaattatctgacatcacattggttgactcctccagAACTATTGATCGTCGCAAAAGACTCATCATAGCCATGGATACTGCATTTGGGATGGAGTATTTGCACGGAAAGAACATTGTTCATTTCGATTTGAAGTGT
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggca----ctgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
| | | | ||| | ||| |||| || | || ||| ||| ||| ||| || | | |||| || |||||| ||| | || || | | | | || ||| | || ||| ||||| |||||||||||||| ||||| | ||| ||||| ||||||||| ||||||| ||||||||||| ||||| || || ||||| |||||||| || ||||||
gtaattgttttgatggtggtttactgaattgcagtttatgagtccttttaactttcttctgttttaggatgtaggctataaagcatatacttagaagtgctcattttttgctgaaaagaa--atgaaaaatttattt-cctgtggaatgtgacaattttatgctattgaacagGACAATAGATCGTCGGAAGAGACGCATCATAGCTATGGATGCTTCATTTGGAATGGAGTATTTACATGGCAAGAATATTGTACATTTTGACTTAAAATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
tgttgat putative branch site (score: 4)
tatttatttatgctgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttgatgcatgcatgggcttatatttcatcaatatttaatagtatgctttaaggcactgaaatgtgcagccttccatctgaaagccctcatggactgttgatgtatttatttatgctgtttattctgagcaatttaacagAACAATAGATCGTCGTAAGAGGCTCATTATAGCCATGGATGCTGCATTTGGGATGGAGTATTTGCATGGAAAAAACATTGTGCATTTTGATTTGAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA