Sequence
atgc intronic sequence ATGC exonic sequencegtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
Basic information
species | Glycine max |
transcript | GLYMA19G39580.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g52690.1 (Oryza sativa), 3'ss of exon 10
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
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------------------------------------------------gtaaattgatttacacaaccatacaattgccataagatgt----gcatatatgcttacggttgcaactcttctgtcaacctcagGCAAGATCTGCACGGCCATGTGTAATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCCTCAGATTCCGCAGGTGTGATGGATAGAG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G445617_T01 (Zea mays), 3'ss of exon 10
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
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------------------------------------------------gtaca-gaatttacacagccatgtaattgtgtgaaacgt-----gcatagtttttttttcagtt--ttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTTGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G058141_T02 (Zea mays), 3'ss of exon 1
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
| | | | ||| | | | |||| |||| | || || |||| | | | | || | | || ||||| || || ||||| ||||||||||| |||||||||||||||||||| || || || || ||||| |||| | ||||||||| ||||| |||||||| |
----------------------------------------------gtacagaatttacacagccatgtaattgtgtg--aaacg---tgcataattttttttttttcagtt--ttccactgtcaatctcagGCTAGGTCTGCACGCCCATGTGTCATTTTCTTTGATGAGCTTGATTCCCTCGCTCCTGCACGAGGATCCTCAGCAGATTCTGGCGGTGTCATGGACAGGG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G03000.1 (Arabidopsis thaliana), 3'ss of exon 9
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaat-gtgtttgtgcctttttactgtgaac-taaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
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------------------------------------------------gtaagttatatttcttcttccctaggagaagcatattgagtctttggttctgattcttaaactagtgtgttttcttcaatt-gcagGCAAGGTCAGCGCGACCTTGTGTGATCTTCTTTGATGAGCTTGATTCTCTTGCTCCAGCTCGAGGTGCTTCTGGTGATTCTGGAGGAGTCATGGATCGAG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0104g01610.t01 (Vitis vinifera), 3'ss of exon 10
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
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--------------------------------------gtaaagatattcttatgtgattagaatgccttgttttgctctaa-catgttttggttgacctcacaattctgtgacattgggcatcctttgtagGCAAGGTCAGCACGTCCATGTGTTATCTTCTTTGATGAACTTGATTCTCTTGCTCCAGCCCGAGGTGCCTCTGGGGATTCTGGGGGTGTTATGGACAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
attttgataaaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataataatattccggatttttttatctaaataatttctcaatttgagtaaatgtgtttgtgcctttttactgtgaactaaacagttttcagaacagattttgataaaatgaacttcaaaataattcacagGCCAGATCAGCACGTCCATGTGTCATCTTCTTTGATGAGCTTGATTCTCTTGCACCAGCTCGAGGTGCCTCTGGAGATTCTGGGGGTGTTATGGACAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT