Sequence
atgc intronic sequence ATGC exonic sequencegttggtgatgcaaactcttctttgctgcagaccctattaattaattgataattatttagatttctctgataattttttcttgtttgtctcgttatgacagATATGCACATTTTATCAGAAAGGAGTCTGTGCTTATGGTAGTCGCTGCAGATATGATCATGTCAAAGCTTCTCGAGAGCAATCTTCTGCTCCATCTTCTT
Basic information
species | Glycine max |
transcript | GLYMA15G42750.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G42750.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G395842_T02 (Zea mays), 3'ss of exon 2
gttggtgatgcaaactcttctttgctgcaga-ccctattaattaattgataattatt--tagatttctctgataattttttcttgtttgtctcgttatgacagATATGCACATTTTATCAGAAAGGAGTCTGTGCTTATGGTAGTCGCTGCAGATATGATCATGTCAAAGCTTCTCGAGAGCAATCTTCTGCTCCATCTTCTT
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gtaacgtattagtaacattccatgcagtttagtcttacatatggagttacagtcataagtgcatatcctctgctgtatcttactgttacacttttcacctcagGTTTGCACATTCTACCAAAAAGGTGCATGCTCGTATGGTAGCCGTTGCAGATATGACCATGTCAAAGTTTCTCGTAACCCCACAGTGCCACCACCACGCC
upper sequence: GLYMA15G42750.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0064g01090.t01 (Vitis vinifera), 3'ss of exon 3
gttggtgatgcaaactcttctttgctgcagaccctatta--attaattgataattatttagatttctctgataattttttcttgtttgtctcgttatgacagATATGCACATTTTATCAGAAAGGAGTCTGTGCTTATGGTAGTCGCTGCAGATATGATCATGTCAAAGCTTCTCGAGAGCAATCTTCTGCTCCATCTTCTT
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---------gtaaaattttct--------gactttcttagaattgacccataaatctagaggctccattat--atccttgtttcctcatctttgtgttacagATTTGTACCTTTTATCAAAAAGGTGTCTGCTCATATGGTGGTCGATGCAGATATGAACATGTTAAAGTTTCTCATTCTCAGCCTTCTGCTCCATCTTCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgataattatttagatttctctgataattttttcttgtttgtctcgttatgacagATATGCACATTTTATCAGAAAGGAGTCTGTGCTTATGGTAGTCGCTGCAGATATGATCATGTCAAAGCTTCTCGAGAGCAATCTTCTGCTCCATCTTCTT
ctctgat putative branch site (score: 4)
ttttttcttgtttgtc putative PPT
attatttagatttctc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtgatgcaaactcttctttgctgcagaccctattaattaattgataattatttagatttctctgataattttttcttgtttgtctcgttatgacagATATGCACATTTTATCAGAAAGGAGTCTGTGCTTATGGTAGTCGCTGCAGATATGATCATGTCAAAGCTTCTCGAGAGCAATCTTCTGCTCCATCTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA