Sequence
atgc intronic sequence ATGC exonic sequencegtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
Basic information
species | Glycine max |
transcript | GLYMA03G32710.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g42840.1 (Oryza sativa), 3'ss of exon 10
gtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttg---tactg---tagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
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--gtatatgtttgtgtgt-ggttatcttcctgcttccatgtatataatgtgctgaagccttgaggcttacgatctaccgtattagGTGCTGCGAGTACGCTCTTTTAATACTGGAGTATTGGGCTGATGCCCCGGAGATACAACGTTCAGCTGATTTATACGAAGATCTAATAAAGTGCTGTGTA
upper sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G052078_T02 (Zea mays), 3'ss of exon 10
gtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
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gtaaatgtgtttgactgttttcacattgtccattggtttcttgccagtttttaagtttacttgtac-----tattccagGTGCTGTGAGTATGCACTTCTGATACTGGAGTATTGGGCTGATGCCTCAGAAATACAACGTTCAGCTGATTTATATGAGGATATGATAAAATGCTGTGTC
upper sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G096905_T01 (Zea mays), 3'ss of exon 7
gtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttgtactgt---agGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
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gtaaatgtgtttgactattttca---cattgtcca-----ttggtttctttccagtttttaagtttatttgtactattccagGTGCTGTGAGTATGCACTTCTGATACTGGAGTATTGGGCAGATGCCTCAGGGATACAACGTTCAGCTGATTTATATGAGGATATGATAAAATGCTACACT
upper sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G20190.1 (Arabidopsis thaliana), 3'ss of exon 10
----------gtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
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gtaagctggagcatttgtatcccattttcttgtatacagatttatga----tgttctggaattgatcccatt---tttttgta-tacagATGTTGTGAATATGCATTGTTAACACTTGAACATTGGCCTGATGCTCCAGAAATTCAACGATCAGTTGATTTATATGAAGATCTGATTAGATGCTGTGTT
upper sequence: GLYMA03G32710.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g05030.t01 (Vitis vinifera), 3'ss of exon 7
----gtatatattatcaactattgaaaagacacaagctagagttttggtttttgatt-aataccat-tggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
| | | | | || | | | | | | || | | | | |||| | | | ||| || || ||||||||||||||| | ||| | |||||| ||||| |||||||||| |||||||| || ||||| || ||||||| ||||| || ||||||||||||
gtttgactctgct-tttgttagtttgggtatatttttttgtatgtttttcctaaactcaatattacattctcttttctattgcagGTGTTGTGAATATTCACTCTTGATACTAGAATATTGGGCTGATGCACCAGAAATACAACGCTCAGCAGACCTATATGAAGATCTTATCAAGTGTTGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacacaagctagagttttggtttttgattaataccattggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
gattaat putative branch site (score: 3)
tttttgattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatattatcaactattgaaaagacacaagctagagttttggtttttgattaataccattggacatttgtactgtagGTGTTGTGAATATGCTTATTTGGTCCTAGAACATTGGCCTGATGCACCTGAAATACATCGATCAGCTGATTTATATGAGGATCTGATAAAGTGTTGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT