Sequence
atgc intronic sequence ATGC exonic sequencegtgcacaaatctacttattgtgattttggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
Basic information
species | Glycine max |
transcript | GLYMA19G41840.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os01g15020.2 (Oryza sativa), 3'ss of exon 12
gtgcacaaatctactt--attgtgattttggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
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gtattagatgcttcttggatggttatcttcaattttccccctagccttggtctccttcaacttcacttt---tcttttgtagGTCTGGGATATGCATGGACAGAAACTGTTTTCATTTGAAGGGCATGAGGCACCAGTGTATTCCATCTGCCCTCACCACAAAGAGAGTATTCAG
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G316967_T01 (Zea mays), 3'ss of exon 12
gtgcacaaatctactt--attgtgattt--tggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
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gtatgagatgtgacttgtatggaaaattaataaactgttt-tacttggcttatctccttgaacttcatttt---ttttatttagGTATGGGATATGCATGGACATAAATTATTCACATTTGAAGGGCATGAGGCACCTGTGTATTCTATATGTCCGCATCACAAAGAGAGTATTCAG
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 12
------------gtgcacaaat-ctacttattgtgattttggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
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gtgaaagggagttttcatgagtgttttttgtttaaattgtaaatccttctt--ttttcctttttacgttctctaagtgaaagaaatgaaacagGTCTGGGATATGAACGGGAGGAAACTATTTAATTTTGAAGGTCATGAGGCTCCAGTATATTCTATATGTCCCCATCACAAGGAGAGCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
atttaat putative branch site (score: 4)
ctctt putative PPT
ttatgcataaatagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcacaaatctacttattgtgattttggattatgcataaatagtatatctatttaatctgaagaagaaactcttaatagGTCTGGGATTTAACTGGACGGAAACTATTTAACTTTGAGGGGCATGAGGCACCTGTATATTCTATCTGTCCTCATCACAAAGAGAGCATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA