Sequence
atgc intronic sequence ATGC exonic sequence...atgacgatactactgcattttttgcatgttgcactagcaattgctgtattagttaacaactcttgtatgtaataatcatatattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
Basic information
species | Glycine max |
transcript | GLYMA03G32130.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 5
atgacgatactactgcattttttgcatgttgcactagcaatt-gctgtattagttaacaactcttgtatgtaataatcat-atattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
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-tgttctttctttatcatggttaataaacagggctaacagcaagccacaaaatattttaggtcaaa-gcaaaataaccaagatttttttttttggttctcagAAATGCACAAAGATGGGGGAACTGGACTGGCTCCTTGGCCTGCTCGATTAACAACTCCACCTCCCCGTCTTGCTGATTTGTATGTCACTGCTGACACATT
upper sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
atgacgatac-tactgcattttttgcatgttgcactagcaattgctgtattagttaacaactcttgtatgtaataatcatatattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
|| | ||| ||| || | || ||||| || | || || | | | | | || ||| || | || |||||| || || ||| ||| ||||| |||||||||||||| |||||||| ||| |||| ||||||||||| || || || |||| | | ||| |||||
gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaac-taaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattagttaacaactcttgtatgtaataatcatatattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
agttaac putative branch site (score: 3)
ctgttct putative PPT
ttgtatgtaataatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgacgatactactgcattttttgcatgttgcactagcaattgctgtattagttaacaactcttgtatgtaataatcatatattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC