Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaagaatttgctactgttgtttgtgcatatataatatacattcatataccttgcagtttgctttgaaggaaaagctaatatttgtttcaatgtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT
Basic information
species | Glycine max |
transcript | GLYMA02G08920.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G08920.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 1
gtaagtaagaatttgctactgttgtttgtgcatatataatatacattcatataccttgcagtt--tgctttgaaggaaaagct--aatatttgtttcaatgtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT
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------------gtatgtatggcatgaattcat-tctaactttatctgaaagacattgaagatagtattctgaacaagtttctgcattatctacttc--tctttgcagATTAACATGAAAGGTCTTGATGGGATCCAAGGACCAATATATGTTGGGACTGGTTGTGTTTTCAGAAGACATGCTTTGTATGGTTATGATGCCCCAACTG
upper sequence: GLYMA02G08920.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0072g00370.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtaagaatttgctactgttgtttgtgcatatataatatacattcatatacct-tgcagtttgctttgaaggaaaagctaatatttg--tttcaat-gtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT
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gtacgtaaggcact-ccagtgtgaatttgataca-atgatgcacagatgtgaatttgtaaaattttgattgagg--aaagctaattttttgttttcaattaaaaacagATCAATATGAAAGGTTTGGATGGGATCCAGGGACCAATTTATGTTGGAACTGGCTGTGTCTTCAGACGGCAGGCACTCTATGGATATGATGCCCCTGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataccttgcagtttgctttgaaggaaaagctaatatttgtttcaatgtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT
agctaat putative branch site (score: 3)
taatatttgtttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaagaatttgctactgttgtttgtgcatatataatatacattcatataccttgcagtttgctttgaaggaaaagctaatatttgtttcaatgtgtatagATCAATATGAAAGGTTTAGATGGCATCCAAGGACCAATATATGTGGGAACTGGGTGTGTCTTCAGGAGACAGGCATTCTATGGATATGATGCCCCTACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA