Sequence
atgc intronic sequence ATGC exonic sequencegtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
Basic information
| species | Glycine max |
| transcript | GLYMA06G14030.2 |
| intron # | 7 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 5
---------------gtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
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gtaagctgaatctgcacaattcatgtatttgcataaatttcattattaattcttatttcaatgaaatttatgcaaatacgtgtacacctgatgtctaaaagctggcccccattcttgttgcctgcagTCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G173428_T04 (Zea mays), 3'ss of exon 5
----gtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG----------------------------------------
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gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgcc-attt-----ttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAGGTTCCCTACCTACACTCATGCTATACCACTAGGTGTTCAT
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G161649_T01 (Zea mays), 3'ss of exon 3
gtaatgtttcttctttgttagagttgccta--ttacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
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gtatgcaaccttcaggaatcaacatactttgttttaagttcatggctcaaggttcatgcttgtttctggtatg-ctctttaaaaagagtt-tggcatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G036634_T01 (Zea mays), 3'ss of exon 14
gtaatgtttcttctttgttagagttgccta--ttacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
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gtatgcaaccttcaggaatcaacatactttgttttaagttcatggctcaaggttcatgcttgtttctggtatgctctttaaaaaaagtttgcc--atttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G132286_T01 (Zea mays), 3'ss of exon 4
gtaatgtttcttctttgttagagttgccta--ttacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
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gtatgcaaccttcaggaatcaacatactttgttttaagttcatggctcaaggttcatgcttgtttctggtatg-ctctttaaaaaaaagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
----gtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
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gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgcc-attt-----ttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
atctaac putative branch site (score: 2)
tatttctc putative PPT
tatatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
