Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccactaagcttaagattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
Basic information
species | Glycine max |
transcript | GLYMA14G02210.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os10g17990.1 (Oryza sativa), 3'ss of exon 8
gtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccactaagcttaagattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
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---------gtaagaaagcattt-tgatgtttcttataagtgaaccggagttctcattccatgtcttctagtccttgtgccatccagcctttttgtcatcctttctattttgcagATCCCTTGGCGAGAAGTGGCAATTATGCCTATTCAGTGGCATGCCTTAGCTCTTGGCTTGTTTGCTTCAATAATAGCACCATTTGGAGGGTTTTTCGCTA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 8
gtaagtaccaaaaaaataaatctatcctaata-atta-caaagagatggcagttttgccactaagctta-agattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
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----------------tatatttaatgtaccacatcatcattggttttgcattatctttctagagtttctagatgtttgattttgtactctgtttgaatacatcgtttc--ttaacagTTCCCATGGAAAGAACTAGCTATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCATCAATAATAGCACCATTTGGAGGATTTTTTGCGA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 8
gtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccactaagctta-agattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
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-----------atgtttgattgtgtactc-tatcatcattggttttgcgttatctctttagagtttctagatgtttgatttg----tactctgtttgattacgtgtctcttaacagTTCCCATGGAAAGATCTAGCCATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCGTCAATAATAGCACCATTCGGAGGATTTTTTGCGA
upper sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
gtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccact-aagcttaagattaagaat----ttaagactaaagtt--ttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
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--------------------cttgtgtaaata--tgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcttaagattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
gactaaa putative branch site (score: 2)
taagattaagaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccactaagcttaagattaagaatttaagactaaagttttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG