Sequence
atgc intronic sequence ATGC exonic sequencegtaatacatgtccccctctttttttgaagttttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
Basic information
species | Glycine max |
transcript | GLYMA06G16110.1 |
intron # | 25 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 25
lower sequence: LOC_Os11g08330.1 (Oryza sativa), 3'ss of exon 25
gtaa-tacatgtccccctctttttttgaagttttttaaacat-ttgtttagattttctctagactaacgtgtaagaaat-cagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
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gtaaacttgaatgtactttcaattgcagagtcatgtatttatcttgtgatggtgatagtttgatgaaatccttcttcttgtagGCATATGAGAGGTCAGAAGATCCTATTTATGTTTTGGATAATAACATACCAATAGATCCCCAATACTACCTTGAGAACCAAATCAGCAAA
upper sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 25
lower sequence: GRMZM2G115245_T01 (Zea mays), 3'ss of exon 9
gtaatacatgtccccctctttttttgaagt----tttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
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gtaaaaaa-gtctgcatcatgtgctgcggtattatctgtcataatgtggtagtgtgtttgatacatttgtctttctgcatgcagGCATATGAGAAATCAGAAGATCCGATTTATGTTTTGGACAATAATATACCCATTGATCCTCAATACTACCTTGAGAACCAAATTAGCAAG
upper sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 25
lower sequence: EFJ15224 (Selaginella moellendorffii), 3'ss of exon 24
gtaatacatgtccccctctttttttgaagttttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
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----------------------gttgtatgtttttgttcattgatctgctgtctctttaaattatctcctttcg---cagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagttttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
gactaac putative branch site (score: 1)
tttttaaacatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatacatgtccccctctttttttgaagttttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG